UCSF ChimeraX version: 1.7.1 (2024-01-23)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
open C:/Users/luod/Downloads/emd_9108.map/6meo.cif6meo.cif title:
Structural basis of coreceptor recognition by HIV-1 envelope spike [more info...]

Chain information for 6meo.cif #1
Chain	Description	UniProt
A	T-cell surface glycoprotein CD4	CD4_HUMAN 1-176
B	C-C chemokine receptor type 5	CCR5_HUMAN 1-313
G	Envelope glycoprotein gp160	Q70145_9HIV1 31-491
Non-standard residues in 6meo.cif #1
A2G — 2-acetamido-2-deoxy-alpha-D-galactopyranose
BMA — beta-D-mannopyranose
MAN — alpha-D-mannopyranose
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose
open C:/Users/luod/Downloads/emd_9108.map/emd_9108.mapOpened emd_9108.map as #2, grid size 300,300,300, pixel 1.06, shown at level 0.0187, step 2, values float32
volume #2 level 0.05
fitmap #1 inMap #2 search 1000Found 20 unique fits from 1000 random placements having fraction of points inside contour >= 0.100 (29 of 1000).

Average map values and times found:
0.05246 (10), 0.02125 (1), 0.01986 (1), 0.01945 (1), 0.01937 (1), 0.01934 (1), 0.01931 (1), 0.01924 (1), 0.01908 (1), 0.01903 (1), 0.01895 (1), 0.01879 (1), 0.01825 (1), 0.01823 (1), 0.01818 (1), 0.01818 (1), 0.01798 (1), 0.01791 (1), 0.0165 (1), 0.01597 (1)

Best fit found:
Fit molecule 6meo.cif (#1) to map emd_9108.map (#2) using 7465 atoms
average map value = 0.05246, steps = 540
shifted from previous position = 5.82
rotated from previous position = 66.6 degrees
atoms outside contour = 4386, contour level = 0.05
Position of 6meo.cif (#1) relative to emd_9108.map (#2) coordinates:
Matrix rotation and translation
0.99990418 0.00022619 0.01384425 -2.31128019
-0.00031429 0.99997970 0.00636259 -1.03289002
-0.01384253 -0.00636636 0.99988391 3.05546895
Axis -0.41765116 0.90843438 -0.01773357
Axis point 219.27612493 0.00000000 169.28731407
Rotation angle (degrees) 0.87314884
Shift along axis -0.02718833

Found 20 fits.
Fit time elapsed: 0:02:09.737641
open C:/Users/luod/Downloads/emd_9108.map/6meo.cif6meo.cif title:
Structural basis of coreceptor recognition by HIV-1 envelope spike [more info...]

Chain information for 6meo.cif #3
Chain	Description	UniProt
A	T-cell surface glycoprotein CD4	CD4_HUMAN 1-176
B	C-C chemokine receptor type 5	CCR5_HUMAN 1-313
G	Envelope glycoprotein gp160	Q70145_9HIV1 31-491
Non-standard residues in 6meo.cif #3
A2G — 2-acetamido-2-deoxy-alpha-D-galactopyranose
BMA — beta-D-mannopyranose
MAN — alpha-D-mannopyranose
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose
rmsd #1 to #3RMSD between 7465 atom pairs is 0.485
close session
open C:/Users/luod/Downloads/emd_13508.map/7pm0.cif7pm0.cif title:
Cryo-EM structure of the actomyosin-V complex in the rigor state (central 1er, young JASP-stabilized F-actin, class 1) [more info...]

Chain information for 7pm0.cif #1
Chain	Description	UniProt
A	Unconventional myosin-Va	MYO5A_CHICK 1-792
B	Myosin light chain 6B	MYL6B_HUMAN 2-151
C	Actin, alpha skeletal muscle	ACTS_RABIT -1-375
Non-standard residues in 7pm0.cif #1
9UE — Jasplakinolide
ADP — adenosine-5'-diphosphate
MG — magnesium ion
PO4 — phosphate ion
open C:/Users/luod/Downloads/emd_13508.map/emd_13508.mapOpened emd_13508.map as #2, grid size 320,320,320, pixel 1.1, shown at level 1.34e-06, step 2, values float32
volume #2 level 0.00678
fitmap #1 inMap #2 search 1000Found 624 unique fits from 1000 random placements having fraction of points inside contour >= 0.100 (708 of 1000).

Average map values and times found:
0.01216 (40), 0.005498 (1), 0.004511 (1), 0.004392 (13), 0.00438 (1), 0.004342 (6), 0.004216 (2), 0.004097 (1), 0.004064 (1), 0.004024 (1), 0.003982 (1), 0.003968 (1), 0.003771 (3), 0.00376 (2), 0.003726 (2), 0.00371 (2), 0.003699 (4), 0.003679 (2), 0.003639 (1), 0.003611 (2), 0.00361 (1), 0.00361 (1), 0.003601 (1), 0.003599 (1), 0.003589 (1), 0.003588 (1), 0.003576 (2), 0.00357 (1), 0.003561 (1), 0.003559 (1), 0.003557 (2), 0.003556 (1), 0.003547 (1), 0.003545 (1), 0.003537 (1), 0.003522 (1), 0.003516 (1), 0.003515 (1), 0.003515 (1), 0.003514 (1), 0.003505 (1), 0.003504 (1), 0.003501 (1), 0.003473 (1), 0.003471 (1), 0.003458 (1), 0.003445 (1), 0.00344 (2), 0.003419 (1), 0.00341 (1), 0.003406 (1), 0.003389 (1), 0.003387 (1), 0.003371 (1), 0.003355 (1), 0.003354 (1), 0.003353 (1), 0.003347 (1), 0.003344 (1), 0.003329 (1), 0.003309 (1), 0.003293 (1), 0.003289 (1), 0.003285 (1), 0.003285 (1), 0.003284 (1), 0.00328 (1), 0.003278 (1), 0.003271 (1), 0.003267 (1), 0.003256 (1), 0.003255 (1), 0.003248 (1), 0.003234 (1), 0.003219 (1), 0.003191 (1), 0.00318 (1), 0.00318 (1), 0.003163 (2), 0.003162 (1), 0.003156 (1), 0.003144 (1), 0.003143 (1), 0.00314 (1), 0.003134 (1), 0.00313 (1), 0.003125 (1), 0.003123 (1), 0.003121 (2), 0.003121 (1), 0.00312 (1), 0.00312 (1), 0.00311 (1), 0.003095 (1), 0.003089 (1), 0.003088 (1), 0.003086 (1), 0.003086 (1), 0.003082 (1), 0.003081 (1), 0.00308 (1), 0.003074 (1), 0.003068 (2), 0.00306 (1), 0.003058 (1), 0.003054 (1), 0.003052 (1), 0.003048 (1), 0.003046 (1), 0.003041 (1), 0.003039 (1), 0.003038 (1), 0.00302 (1), 0.003019 (1), 0.003013 (1), 0.003013 (1), 0.00301 (1), 0.003002 (1), 0.002999 (1), 0.002998 (1), 0.002992 (1), 0.002992 (1), 0.002988 (1), 0.002978 (1), 0.002976 (1), 0.002976 (1), 0.002974 (1), 0.002973 (2), 0.002972 (1), 0.002971 (1), 0.002971 (2), 0.002971 (1), 0.002971 (1), 0.00297 (1), 0.002964 (1), 0.002964 (1), 0.002959 (1), 0.002957 (1), 0.002954 (1), 0.00295 (1), 0.00295 (1), 0.002949 (1), 0.002946 (1), 0.00294 (1), 0.002938 (1), 0.002926 (1), 0.002926 (1), 0.002922 (1), 0.00292 (1), 0.002918 (1), 0.002913 (1), 0.002907 (1), 0.002905 (1), 0.002905 (1), 0.002904 (1), 0.002899 (1), 0.002896 (1), 0.002896 (1), 0.002894 (1), 0.002894 (1), 0.002893 (1), 0.002889 (1), 0.002889 (1), 0.002888 (1), 0.002882 (1), 0.002877 (1), 0.002876 (1), 0.002873 (1), 0.002873 (2), 0.002871 (1), 0.002869 (1), 0.002868 (1), 0.002867 (1), 0.002857 (1), 0.002856 (1), 0.002856 (1), 0.002853 (1), 0.002852 (1), 0.002848 (1), 0.002848 (1), 0.002844 (1), 0.002843 (1), 0.002843 (1), 0.002842 (1), 0.00284 (1), 0.002839 (1), 0.002838 (1), 0.002833 (1), 0.002833 (2), 0.002832 (1), 0.002831 (1), 0.002831 (1), 0.00283 (1), 0.00283 (1), 0.002829 (1), 0.002829 (2), 0.002827 (1), 0.002826 (1), 0.002825 (1), 0.002822 (1), 0.002822 (1), 0.002818 (1), 0.002814 (1), 0.002811 (1), 0.002809 (1), 0.002808 (2), 0.002803 (1), 0.002802 (1), 0.002802 (1), 0.002802 (1), 0.002801 (1), 0.002799 (1), 0.002795 (1), 0.002794 (1), 0.002791 (1), 0.002787 (1), 0.002786 (1), 0.002782 (1), 0.002781 (1), 0.002777 (1), 0.002772 (1), 0.002771 (1), 0.002769 (1), 0.002769 (1), 0.002768 (1), 0.002767 (1), 0.002767 (1), 0.002766 (1), 0.002766 (1), 0.002765 (1), 0.002764 (1), 0.002763 (1), 0.002762 (1), 0.002761 (1), 0.00276 (1), 0.002757 (1), 0.002751 (1), 0.00275 (1), 0.002749 (1), 0.002749 (1), 0.002748 (1), 0.002748 (1), 0.002746 (1), 0.002746 (1), 0.002745 (1), 0.002742 (1), 0.002741 (1), 0.00274 (1), 0.002739 (1), 0.002738 (1), 0.002736 (1), 0.002736 (1), 0.002733 (1), 0.002731 (1), 0.00273 (1), 0.00273 (1), 0.002726 (1), 0.002725 (1), 0.002721 (1), 0.002719 (1), 0.002719 (1), 0.002718 (1), 0.002716 (1), 0.002715 (1), 0.002713 (1), 0.002706 (1), 0.0027 (1), 0.002699 (1), 0.002697 (1), 0.002696 (1), 0.002696 (1), 0.002695 (1), 0.002695 (1), 0.002691 (1), 0.002687 (1), 0.002685 (1), 0.002685 (1), 0.00268 (1), 0.002677 (1), 0.002677 (1), 0.002676 (1), 0.00267 (1), 0.002667 (1), 0.002665 (1), 0.002663 (1), 0.002657 (1), 0.002656 (1), 0.002656 (1), 0.002653 (1), 0.002652 (1), 0.002652 (1), 0.002646 (1), 0.002638 (1), 0.002638 (1), 0.002636 (1), 0.002632 (1), 0.002623 (1), 0.00262 (1), 0.002619 (1), 0.002618 (1), 0.002618 (1), 0.002613 (1), 0.002612 (1), 0.002612 (1), 0.002611 (1), 0.00261 (1), 0.002609 (1), 0.002601 (1), 0.0026 (1), 0.002588 (1), 0.002582 (1), 0.002576 (1), 0.002574 (1), 0.002572 (1), 0.002564 (1), 0.002561 (1), 0.002558 (1), 0.002557 (1), 0.002555 (1), 0.002553 (1), 0.002551 (1), 0.002551 (1), 0.002549 (1), 0.002549 (1), 0.002545 (1), 0.002542 (1), 0.002541 (1), 0.00254 (1), 0.002538 (1), 0.002534 (1), 0.002531 (1), 0.002523 (1), 0.002523 (1), 0.002519 (1), 0.002516 (1), 0.002516 (1), 0.002511 (1), 0.002508 (1), 0.002506 (1), 0.002505 (1), 0.002504 (1), 0.002502 (1), 0.002502 (1), 0.002501 (1), 0.0025 (1), 0.002498 (1), 0.002497 (1), 0.002494 (1), 0.002491 (1), 0.002486 (1), 0.002484 (1), 0.002484 (1), 0.002483 (1), 0.002483 (1), 0.002481 (1), 0.002479 (1), 0.002478 (1), 0.002477 (1), 0.002477 (1), 0.002468 (1), 0.002467 (1), 0.002454 (1), 0.002453 (1), 0.002451 (1), 0.002445 (1), 0.002444 (1), 0.002438 (1), 0.002434 (1), 0.002434 (1), 0.002433 (1), 0.002432 (1), 0.002431 (1), 0.002429 (1), 0.002427 (1), 0.002423 (1), 0.002419 (1), 0.002419 (1), 0.002416 (1), 0.002415 (1), 0.002414 (1), 0.002413 (1), 0.002412 (1), 0.002411 (1), 0.002407 (1), 0.002406 (1), 0.002406 (1), 0.002405 (1), 0.002404 (1), 0.002402 (1), 0.002401 (1), 0.0024 (1), 0.002397 (1), 0.002395 (1), 0.002394 (1), 0.002391 (1), 0.00239 (1), 0.002383 (1), 0.002379 (1), 0.002377 (1), 0.002376 (1), 0.002376 (2), 0.002376 (1), 0.002375 (1), 0.002374 (1), 0.002373 (1), 0.002369 (1), 0.002368 (1), 0.002356 (1), 0.00235 (2), 0.002341 (1), 0.002341 (1), 0.00234 (1), 0.002338 (1), 0.002333 (1), 0.002323 (1), 0.002321 (1), 0.002318 (1), 0.002317 (1), 0.002315 (1), 0.002314 (1), 0.002314 (1), 0.002313 (1), 0.00231 (1), 0.002308 (1), 0.002307 (1), 0.002306 (1), 0.002299 (1), 0.002298 (1), 0.002298 (1), 0.002297 (1), 0.002297 (1), 0.002296 (1), 0.002294 (1), 0.00229 (1), 0.002286 (1), 0.002279 (1), 0.002276 (1), 0.002273 (1), 0.002272 (1), 0.00227 (1), 0.00226 (1), 0.002258 (1), 0.002257 (1), 0.002251 (1), 0.002251 (1), 0.002245 (1), 0.002243 (1), 0.00224 (1), 0.00224 (1), 0.002239 (1), 0.002221 (2), 0.002215 (1), 0.002209 (1), 0.002208 (1), 0.002207 (1), 0.002206 (1), 0.002205 (1), 0.002205 (1), 0.002204 (1), 0.002201 (1), 0.002197 (1), 0.00219 (1), 0.002189 (1), 0.002186 (1), 0.002182 (1), 0.002181 (1), 0.002178 (1), 0.002177 (1), 0.002175 (1), 0.002169 (1), 0.002161 (1), 0.00216 (1), 0.002159 (1), 0.002158 (1), 0.002157 (1), 0.002154 (1), 0.002153 (1), 0.002151 (1), 0.00215 (1), 0.002147 (1), 0.002143 (1), 0.00214 (1), 0.00214 (1), 0.002132 (2), 0.002132 (1), 0.002119 (1), 0.002118 (1), 0.002116 (1), 0.002115 (1), 0.002114 (1), 0.002112 (1), 0.00211 (1), 0.002105 (1), 0.002098 (1), 0.002091 (1), 0.002086 (1), 0.00208 (1), 0.002078 (1), 0.002074 (1), 0.00207 (1), 0.002069 (1), 0.002069 (1), 0.002066 (1), 0.002062 (1), 0.002061 (1), 0.002058 (1), 0.002054 (1), 0.002048 (1), 0.002042 (1), 0.002041 (1), 0.00204 (1), 0.00204 (1), 0.002039 (1), 0.002033 (1), 0.002033 (1), 0.00203 (1), 0.002027 (1), 0.002017 (1), 0.002017 (1), 0.002014 (1), 0.002012 (1), 0.002001 (1), 0.001998 (1), 0.001994 (1), 0.001994 (1), 0.001989 (1), 0.001987 (1), 0.001986 (1), 0.001984 (1), 0.001984 (1), 0.001984 (1), 0.001984 (1), 0.001981 (1), 0.001981 (1), 0.001973 (1), 0.001972 (1), 0.001969 (1), 0.001968 (1), 0.001967 (1), 0.00196 (1), 0.001959 (1), 0.001959 (1), 0.001957 (1), 0.001957 (1), 0.001954 (1), 0.001951 (1), 0.001948 (1), 0.001947 (1), 0.001946 (1), 0.001941 (1), 0.001937 (1), 0.001931 (1), 0.001918 (1), 0.001917 (1), 0.001916 (1), 0.001916 (1), 0.001916 (1), 0.001915 (1), 0.001915 (1), 0.001914 (1), 0.001913 (1), 0.001904 (1), 0.0019 (1), 0.001898 (1), 0.001898 (1), 0.001893 (1), 0.001889 (1), 0.001885 (1), 0.001882 (1), 0.001879 (1), 0.001877 (1), 0.001875 (1), 0.001872 (1), 0.001871 (1), 0.001858 (2), 0.001857 (1), 0.001848 (1), 0.001834 (1), 0.001834 (1), 0.001833 (1), 0.001832 (1), 0.001829 (1), 0.001822 (1), 0.001821 (1), 0.00182 (1), 0.001813 (1), 0.001812 (1), 0.001806 (1), 0.001802 (1), 0.0018 (1), 0.001799 (1), 0.001799 (1), 0.001793 (1), 0.001788 (1), 0.001786 (1), 0.001776 (1), 0.001775 (1), 0.001769 (1), 0.001765 (1), 0.001764 (1), 0.001752 (1), 0.00175 (1), 0.001741 (1), 0.001738 (1), 0.001737 (1), 0.001736 (1), 0.001734 (1), 0.001721 (1), 0.00172 (1), 0.001717 (1), 0.001716 (1), 0.0017 (1), 0.001698 (1), 0.001696 (1), 0.001694 (1), 0.001691 (1), 0.001689 (1), 0.001686 (1), 0.001684 (1), 0.001681 (1), 0.001681 (1), 0.001673 (1), 0.00166 (1), 0.001639 (1)

Best fit found:
Fit molecule 7pm0.cif (#1) to map emd_13508.map (#2) using 10169 atoms
average map value = 0.01216, steps = 476
shifted from previous position = 17.2
rotated from previous position = 71.3 degrees
atoms outside contour = 2669, contour level = 0.00678
Position of 7pm0.cif (#1) relative to emd_13508.map (#2) coordinates:
Matrix rotation and translation
0.99999986 0.00051365 0.00002005 -0.11145984
-0.00051360 0.99999983 0.00023499 0.04609773
-0.00001987 -0.00023498 0.99999994 0.04926542
Axis -0.41577391 0.03531213 -0.90878221
Axis point 89.46338299 214.44241970 0.00000000
Rotation angle (degrees) 0.03238221
Shift along axis 0.00319837

Found 624 fits.
Fit time elapsed: 0:04:45.562421
open C:/Users/luod/Downloads/DiffFit_benchmark_data/13508/7pm0.cif7pm0.cif title:
Cryo-EM structure of the actomyosin-V complex in the rigor state (central 1er, young JASP-stabilized F-actin, class 1) [more info...]

Chain information for 7pm0.cif #3
Chain	Description	UniProt
A	Unconventional myosin-Va	MYO5A_CHICK 1-792
B	Myosin light chain 6B	MYL6B_HUMAN 2-151
C	Actin, alpha skeletal muscle	ACTS_RABIT -1-375
Non-standard residues in 7pm0.cif #3
9UE — Jasplakinolide
ADP — adenosine-5'-diphosphate
MG — magnesium ion
PO4 — phosphate ion
rmsd #1 to #3RMSD between 10169 atom pairs is 0.025
close session
open C:/Users/luod/Downloads/DiffFit_benchmark_data/5450/3j1z.cif3j1z.cif title:
Inward-Facing Conformation of the Zinc Transporter YiiP revealed by Cryo-electron Microscopy [more info...]

Chain information for 3j1z.cif #1
Chain	Description	UniProt
P Q	Cation efflux family protein	Q8E919_SHEON 1-296 297-592
3j1z.cif mmCIF Assemblies
1	representative helical assembly
2	helical asymmetric unit
3	helical asymmetric unit, std helical frame

open C:/Users/luod/Downloads/DiffFit_benchmark_data/5450/EMD-5450.mapOpened EMD-5450.map as #2, grid size 160,200,160, pixel 2.73,2.73,2.73, shown at level 0.000815, step 1, values float32
open C:/Users/luod/Downloads/DiffFit_benchmark_data/5450/3j1z.cif3j1z.cif title:
Inward-Facing Conformation of the Zinc Transporter YiiP revealed by Cryo-electron Microscopy [more info...]

Chain information for 3j1z.cif #3
Chain	Description	UniProt
P Q	Cation efflux family protein	Q8E919_SHEON 1-296 297-592
3j1z.cif mmCIF Assemblies
1	representative helical assembly
2	helical asymmetric unit
3	helical asymmetric unit, std helical frame

fitmap #1 inMap #2 search 1000Found 59 unique fits from 1000 random placements having fraction of points inside contour >= 0.100 (959 of 1000).

Average map values and times found:
6.738 (141), 6.708 (129), 4.552 (88), 4.542 (63), 4.177 (16), 4.166 (16), 4.151 (18), 4.127 (61), 4.091 (56), 4.064 (12), 4.061 (9), 4.024 (9), 4.022 (26), 3.999 (5), 3.998 (32), 3.818 (33), 3.816 (38), 3.808 (6), 3.795 (5), 3.793 (39), 3.767 (24), 3.684 (1), 3.273 (14), 3.243 (12), 3.24 (6), 3.234 (2), 3.217 (4), 3.209 (2), 3.151 (1), 3.137 (4), 2.93 (3), 2.916 (4), 2.847 (9), 2.834 (2), 2.83 (5), 2.774 (1), 2.767 (4), 2.749 (6), 2.739 (1), 2.7 (1), 2.681 (1), 2.666 (2), 2.571 (1), 2.503 (2), 2.485 (3), 2.475 (1), 2.435 (1), 2.419 (4), 2.419 (3), 2.354 (5), 2.349 (10), 2.342 (6), 2.34 (1), 2.336 (3), 2.328 (1), 2.322 (4), 2.268 (1), 2.264 (1), 0.08141 (1)

Best fit found:
Fit molecule 3j1z.cif (#1) to map EMD-5450.map (#2) using 4586 atoms
average map value = 6.738, steps = 220
shifted from previous position = 30.2
rotated from previous position = 113 degrees
atoms outside contour = 96, contour level = 0.0008148
Position of 3j1z.cif (#1) relative to EMD-5450.map (#2) coordinates:
Matrix rotation and translation
0.99999866 -0.00158944 0.00046311 -0.03463843
0.00158852 0.99999678 0.00199252 -0.50778892
-0.00046624 -0.00199173 0.99999795 -0.05678527
Axis -0.76908945 0.17939348 0.61344877
Axis point 0.00000000 1.81188005 245.91416515
Rotation angle (degrees) 0.14841004
Shift along axis -0.09928883

Found 59 fits.
Fit time elapsed: 0:01:12.655357
volume #2 level 3.9
fitmap #1 inMap #2 search 1000Found 50 unique fits from 1000 random placements having fraction of points inside contour >= 0.100 (991 of 1000).

Average map values and times found:
6.738 (159), 6.708 (149), 4.552 (62), 4.542 (94), 4.177 (14), 4.166 (12), 4.151 (13), 4.127 (65), 4.091 (50), 4.063 (13), 4.061 (13), 4.024 (6), 4.022 (28), 3.999 (10), 3.998 (19), 3.818 (43), 3.816 (31), 3.808 (13), 3.796 (9), 3.793 (37), 3.767 (24), 3.273 (12), 3.243 (11), 3.24 (4), 3.234 (7), 3.217 (6), 3.209 (1), 3.151 (7), 3.137 (5), 2.93 (7), 2.916 (4), 2.89 (1), 2.847 (5), 2.834 (2), 2.83 (3), 2.774 (3), 2.768 (1), 2.749 (5), 2.717 (3), 2.503 (3), 2.436 (1), 2.419 (3), 2.419 (3), 2.407 (1), 2.354 (4), 2.349 (9), 2.342 (6), 2.341 (6), 2.322 (2), 2.268 (2)

Best fit found:
Fit molecule 3j1z.cif (#1) to map EMD-5450.map (#2) using 4586 atoms
average map value = 6.738, steps = 172
shifted from previous position = 26.3
rotated from previous position = 76.6 degrees
atoms outside contour = 527, contour level = 3.9
Position of 3j1z.cif (#1) relative to EMD-5450.map (#2) coordinates:
Matrix rotation and translation
0.99999869 -0.00164626 -0.00005290 0.01728138
0.00164638 0.99999576 0.00241470 -0.55976072
0.00004892 -0.00241472 0.99999710 -0.06776309
Axis -0.82611376 -0.01741616 0.56323417
Axis point 0.00000000 -18.38423414 232.09247027
Rotation angle (degrees) 0.16747423
Shift along axis -0.04269399

Found 50 fits.
Fit time elapsed: 0:01:02.955905
rmsd #1 to #3RMSD between 4586 atom pairs is 0.388
close session
open C:/Users/luod/Downloads/DiffFit_benchmark_data/3658/5nl2.cif5nl2.cif title:
cryo-EM structure of the mTMEM16A ion channel at 6.6 A resolution. [more info...]

Chain information for 5nl2.cif #1
Chain	Description	UniProt
A B	Anoctamin-1	ANO1_MOUSE 1-960
open C:/Users/luod/Downloads/DiffFit_benchmark_data/3658/emd_3658.mapOpened emd_3658.map as #2, grid size 256,256,256, pixel 1.35, shown at level 0.0181, step 1, values float32
open C:/Users/luod/Downloads/DiffFit_benchmark_data/3658/5nl2.cif5nl2.cif title:
cryo-EM structure of the mTMEM16A ion channel at 6.6 A resolution. [more info...]

Chain information for 5nl2.cif #3
Chain	Description	UniProt
A B	Anoctamin-1	ANO1_MOUSE 1-960
volume #2 level 0.0297
fitmap #1 inMap #2 search 1000Found 935 unique fits from 1000 random placements having fraction of points inside contour >= 0.100 (967 of 1000).

Average map values and times found:
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Best fit found:
Fit molecule 5nl2.cif (#1) to map emd_3658.map (#2) using 4312 atoms
average map value = 0.03938, steps = 328
shifted from previous position = 58.1
rotated from previous position = 38 degrees
atoms outside contour = 626, contour level = 0.0297
Position of 5nl2.cif (#1) relative to emd_3658.map (#2) coordinates:
Matrix rotation and translation
-0.99999965 -0.00064042 0.00058730 345.60135928
0.00064030 -0.99999979 -0.00018230 345.54880234
0.00058745 -0.00018193 0.99999982 -0.10225474
Axis 0.00028582 -0.00011515 0.99999995
Axis point 172.74537537 172.82972259 0.00000000
Rotation angle (degrees) 179.96331009
Shift along axis -0.04326213

Found 935 fits.
Fit time elapsed: 0:01:31.672721
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
hide #!2 models
show #!2 models
hide #!2 models
show #!2 models
rmsd #1 to #3RMSD between 4312 atom pairs is 11.879
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
rmsd #1 to #3RMSD between 4312 atom pairs is 11.879
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
hide #!2 models
hide #!1 models
show #!1 models
hide #!3 models
show #!3 models
hide #!3 models
show #!3 models
hide #!3 models
show #!3 models
hide #!3 models
show #!3 models
hide #!1 models
show #!1 models
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
rmsd #1 to #3RMSD between 4312 atom pairs is 11.879
rmsd #1 to #3RMSD between 4312 atom pairs is 26.226
rmsd #1 to #3RMSD between 4312 atom pairs is 13.551
rmsd #1 to #3RMSD between 4312 atom pairs is 57.028
save "C:/Users/luod/Downloads/RMSD error.cxs"