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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
GSCKGRCFELCRCDNLCKSYTSCCHDFDELCLKTARGWECTKDRCGEVRNEENACHCSEDCLARGDCCTNYQVVCKGESH
WVDDDCEEIKAAECPAGFVRPPLIIFSVDGFRASYMKKGSKVMPNIEKLRSCGTHSPYMRPVYPTKTFPNLYTLATGLYP
ESHGIVGNSMYDPVFDATFHLRGREKFNHRWWGGQPLWITATKQGVKAGTFFWSVVIPHERRILTILQWLTLPDHERPSV
YAFYSEQPDFSGHKYGPFGPEMTNPLREIDKIVGQLMDGLKQLKLHRCVNVIFVGDHGMEDVTCDRTEFLSNYLTNVDDI
TLVPGTLGRIRSKFSNNAKYDPKAIIAALTCKKPDQHFKPYLKQHLPKRLHYANNRRIEDIHLLVERRWHVARKPFFQGD
HGFDNKVNSMQTVFVGYGSTFKYKTKVPPFENIELYNVMCDLLGLKPAPNNGTHGSLNHLLRTNTFRPTMPEEVTRPNYP
GIMYLQSDFDLGCSTEERHLLYGRPAVLYRTRYDILYHTDFESGYSEIFLMPLWTSYTVSKQAEVSSCVRPDVRVSPSFS
QNCLAYKNDKQMSYGFLFPPYLSSSPEAKYDAFLVTNMVPMYPAFKRVWNYFQRVLVKKYASERNGVNVISGPIFDYDYD
GLHDTEDKIKQYVEGSSIPVPTHYYSIITSCLDFTQPADKCDGPLSVSSFILPHRPDNEESCNSSEDESKWVEELMKMHT
ARVRDIEHLTSLDFFRKTSRSYPEILTLKTYLHTYE

The query sequence (length=756) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 4zg9:B 764 770 0.9881 0.9777 0.9701 0.0 5kxa:A, 5m7m:A, 4zg6:A, 4zg6:B, 4zg9:A, 4zga:A
2 3way:A 787 782 0.9537 0.9161 0.9220 0.0 8c3o:B, 8c3p:A, 8c3p:B, 8c4w:A, 8c7r:A, 5dlv:A, 5dlv:B, 5dlw:A, 5inh:A, 5l0b:A, 5l0b:B, 5l0e:A, 5l0e:B, 5l0k:A, 5l0k:B, 6leh:A, 5lqq:A, 5m0d:A, 5m0e:A, 5m0m:A, 5m0s:A, 7mfh:A, 5mhp:A, 3nkn:A, 3nko:A, 3nkq:A, 3nkr:A, 5ohi:A, 5olb:A, 7p0k:AAA, 7p4j:A, 7p4o:A, 3waw:A, 6y5m:A, 4zg7:A
3 5s9m:A 809 802 0.9524 0.8900 0.8978 0.0 8c3o:A, 5dlt:A, 9ent:A, 9eu5:A, 5hrt:A, 5ijq:A, 5ijs:A, 5lia:A, 3nkm:A, 3nkp:A, 5s9l:A, 5s9n:A, 6w35:A, 3wav:A, 3wax:A, 2xr9:A, 7z0n:AAA, 7z3k:AAA, 7z3l:AAA
4 2xrg:A 758 769 0.9378 0.9354 0.9220 0.0
5 5gz4:A 804 802 0.4960 0.4664 0.4676 0.0 7cba:A, 7cba:B, 5gz5:A
6 6c01:A 819 823 0.4854 0.4481 0.4459 0.0 6c01:B, 6c02:A, 6c02:B
7 6wev:AbA 817 816 0.4960 0.4590 0.4596 0.0 8ghr:A, 8ghr:B, 6wet:AaA, 6wet:BaB, 6weu:AbA, 6weu:BbB, 6wev:BbB, 6wew:AbA, 6wew:BaB, 6wfj:AcA, 6wfj:BcB
8 6g4g:D 781 808 0.4775 0.4622 0.4468 0.0 6g4g:A
9 4b56:A 816 814 0.4709 0.4363 0.4373 0.0 6aek:A, 6ael:A, 4b56:B
10 6g4g:C 742 792 0.4683 0.4771 0.4470 0.0
11 6g4g:B 759 809 0.4709 0.4690 0.4400 0.0
12 6f2t:B 722 728 0.4431 0.4640 0.4602 0.0 6f2t:A, 6f2v:A, 6f2v:B, 6f2y:A, 6f2y:B, 6f30:A, 6f30:B, 6f33:A, 6f33:B
13 4gtw:A 706 706 0.4153 0.4448 0.4448 0.0 4gtw:B, 4gtx:A, 4gtx:B, 4gty:A, 4gty:B, 4gtz:A, 4gtz:B, 6xkd:B
14 6xkd:A 679 698 0.4127 0.4595 0.4470 0.0
15 4lqy:A 379 391 0.1772 0.3536 0.3427 2.28e-54 4lr2:A
16 5ven:A 382 382 0.1534 0.3037 0.3037 9.24e-53 5ven:B, 5veo:A
17 5vem:A 383 383 0.1548 0.3055 0.3055 1.61e-52 5vem:B, 5vem:C
18 5tcd:A 388 407 0.1693 0.3299 0.3145 4.51e-49 5udy:A
19 5egh:B 393 400 0.1481 0.2850 0.2800 3.20e-47 5ege:A, 5ege:B, 5ege:C, 5ege:D, 5egh:A
20 7mw8:C 385 386 0.1442 0.2831 0.2824 1.84e-46 2gsn:A, 2gsn:B, 2gso:A, 2gso:B, 2gsu:A, 2gsu:B, 7mw8:A, 7mw8:D, 7mw8:B, 7mw8:E, 7mw8:F, 7n1s:A, 7n1s:B, 2rh6:A, 2rh6:B
21 3szy:A 413 247 0.0807 0.1477 0.2470 1.11e-05 3szz:A, 3t00:A, 3t01:A, 3t02:A
22 1n2l:A 483 69 0.0317 0.0497 0.3478 0.029 1auk:A, 1e1z:P, 1e2s:P, 1e33:P, 1e3c:P, 1n2k:A
23 6s21:A 486 40 0.0225 0.0350 0.4250 0.059 6s21:B, 6s21:C
24 1ei6:A 404 201 0.0648 0.1213 0.2438 0.066 1ei6:B, 1ei6:C, 1ei6:D
25 6hhm:A 459 30 0.0172 0.0283 0.4333 0.58
26 7oz9:BBB 483 47 0.0172 0.0269 0.2766 4.9 7oz9:AAA
27 8di0:B 426 30 0.0146 0.0258 0.3667 5.5
28 5tj3:A 520 135 0.0450 0.0654 0.2519 6.3 5too:A
29 1y1p:A 342 64 0.0265 0.0585 0.3125 6.7 1y1p:B
30 7shg:A 591 180 0.0608 0.0778 0.2556 7.0 7shg:B
31 2w7y:A 389 70 0.0238 0.0463 0.2571 8.2 2w7y:B
32 5gkp:B 239 105 0.0357 0.1130 0.2571 8.8 5gkp:A
33 5nd5:A 669 54 0.0238 0.0269 0.3333 8.8 5nd5:B

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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