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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
QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL
SYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDV
YAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLE
REVYEGRFSLYPFLCLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQRQRVSGQVQALQNHYRKYLCLL
ASDAEVPEPCLPRQYWEALGAPEALREQPWPLPVQMELGKLLAEMLVQATQMPCSSRLVPVLYHVYSFRNVQQIGILKPH
PAYVQLLEKAAEPTLTFEAVDVPMLCPPLPWTSPHSGAFLLSPTKLMRTVEGATQHQELLETCPPTALHGALDALTQLGN
CAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHSAAPARKAELRRELAHCQKVAREMHSLRAEALYRLS
LAQHLRDRVFWLPHNMDFRGRTYPCPPHFNHLGSDVARALLEFAQGRPLGPHGLDWLKIHLVNLTGLKKREPLRKRLAFA
EEVMDDILDSADQPLTGRKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSHLPVHQDGSCNGLQHYAALGRDSVGAASV
NLEPSDVPQDVYSGVAAQVEVFRRQDAQRGMRVAQVLEGFITRKVVKQTVMTVVYGVTRYGGRLQIEKRLRELSDFPQEF
VWEASHYLVRQVFKSLQEMFSGTRAIQHWLTESARLISHMGSVVEWVTPLGVPVIQPYRLDSRKPNTRKQKNGFPPNFIH
SLDSSHMMLTALHCYRKGLTFVSVHDCYWTHAADVSVMNQVCREQFVRLHSEPILQDLSRFLVKRFCSEPQKILEASQLK
ETLQAVPKPGAFDLEQVKRSTYFFS

The query sequence (length=985) 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 9bdc:E 990 990 0.9980 0.9929 0.9929 0.0 9bdd:E, 4boc:A, 5ola:E, 5ola:F, 8u8u:E, 8u8v:E
2 6erp:A 1011 1007 0.9787 0.9535 0.9573 0.0 6erp:B, 6erq:A, 6erq:B
3 3spa:A 941 985 0.9553 1.0000 0.9553 0.0 7a8p:A
4 8c5s:A 924 662 0.2690 0.2868 0.4003 9.22e-154 8ap1:A, 8att:A, 8atv:A, 8atw:A, 8c5u:A, 8q63:A, 6ymw:A
5 6ymv:A 887 653 0.2579 0.2864 0.3890 2.78e-145
6 8dh2:L 741 627 0.1868 0.2483 0.2935 6.05e-67
7 8dh3:M 775 623 0.1878 0.2387 0.2970 2.44e-66 8dh0:N
8 8dh5:M 740 625 0.1858 0.2473 0.2928 4.38e-66
9 8dh4:I 821 644 0.1878 0.2253 0.2873 7.26e-65 8dh0:J
10 8dh1:L 702 607 0.1807 0.2536 0.2932 4.00e-64
11 1msw:D 863 773 0.2071 0.2364 0.2639 1.69e-63 1cez:A, 8dh1:B, 8dh2:B, 8dh3:B, 8dh4:B, 8dh5:B, 3e2e:A, 3e3j:C, 3e3j:B, 1h38:A, 1h38:B, 1h38:C, 1h38:D, 2pi4:A, 2pi5:A, 1qln:A, 1s0v:A, 1s0v:B, 1s0v:C, 1s0v:D
12 8dh3:E 825 663 0.1868 0.2230 0.2775 1.82e-62 8dh4:M, 8dh5:E
13 8dh0:F 796 649 0.1817 0.2249 0.2758 1.97e-62
14 8dh2:E 841 764 0.2020 0.2366 0.2605 1.24e-61 8dh0:B, 8dh1:E, 8dh1:I, 8dh2:I, 8dh3:I, 8dh4:E, 8dh5:I, 1s76:D, 1s77:D
15 6dt7:A 265 78 0.0244 0.0906 0.3077 0.015 6dt8:A, 6dta:A
16 4m59:A 687 82 0.0234 0.0335 0.2805 0.042 4m59:B, 4oe1:A, 4oe1:B
17 4m59:A 687 130 0.0345 0.0495 0.2615 1.4 4m59:B, 4oe1:A, 4oe1:B
18 4m59:A 687 63 0.0173 0.0247 0.2698 2.5 4m59:B, 4oe1:A, 4oe1:B
19 6dt7:B 404 174 0.0457 0.1114 0.2586 1.1 6dt8:B, 6dta:B
20 3ic4:A 92 45 0.0142 0.1522 0.3111 1.7
21 3hsr:B 133 79 0.0213 0.1579 0.2658 2.3 3hsr:A, 3hsr:C, 3hsr:D
22 7w5a:X 87 44 0.0173 0.1954 0.3864 3.9 7w59:X
23 7pub:FO 267 78 0.0213 0.0787 0.2692 3.9
24 6xyw:AO 452 64 0.0142 0.0310 0.2188 4.8
25 4kr6:B 388 91 0.0274 0.0696 0.2967 5.2 4kr6:A, 4kr7:A, 4kr7:B, 4kr9:A, 4kr9:B
26 6xyw:BG 364 81 0.0213 0.0577 0.2593 5.2
27 7n61:0X 420 66 0.0223 0.0524 0.3333 5.8 7n61:0Y, 7n61:0Z, 7n61:1A
28 2z86:C 603 84 0.0183 0.0299 0.2143 6.7 2z86:A, 2z86:B, 2z86:D, 2z87:A, 2z87:B
29 6ap6:A 264 23 0.0142 0.0530 0.6087 7.5 6ap6:B, 6ap7:A, 6ap7:B, 6o5j:A, 6o5j: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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