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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
MPNFFIDRPIFAWVIAIIIMLAGGLAILKLPVAQYPTIAPPAVTISASYPGADAKTVQDTVTQVIEQNMNGIDNLMYMSS
NSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQEVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAA
NMKDAISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRL
TSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSG
LKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFGMVL
AIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMAL
SVLVALILTPALCATMLKPIAKGDHGEGKKGFFGWFNRMFEKSTHHYTDSVGGILRSTGRYLVLYLIIVVGMAYLFVRLP
SSFLPDEDQGVFMTMVQLPAGATQERTQKVLNEVTHYYLTKEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGE
ENKVEAITMRATRAFSQIKDAMVFAFNLPAIVELGTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNG
LEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYRMLPDDIGDWYVRAADGQMVP
FSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQERLSGNQAPSLYAIS
LIVVFLCLAALYESWSIPFSVMLVVPLGVIGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGL
IEATLDAVRMRLRPILMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIFFVPVFFVVVRRRFSRK

The query sequence (length=1036) 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 4zjl:A 1044 1035 0.9990 0.9914 1.0000 0.0 3aob:C, 3aoc:C, 3aod:A, 3aod:C, 9bfh:A, 9bfm:A, 9bfn:A, 9bft:A, 2dr6:A, 2drd:A, 4dx5:B, 4dx7:A, 4dx7:B, 8ffs:A, 5jmn:A, 5jmn:B, 5jmn:C, 5nc5:B, 5ng5:K, 5ng5:L, 5ng5:J, 7ouk:A, 7ouk:B, 7ouk:C, 7oul:A, 7oul:C, 7oum:A, 7oum:B, 7oum:C, 8p1i:A, 8p1i:B, 6q4n:A, 6q4n:B, 6q4n:C, 6q4o:B, 2rdd:A, 1t9u:A, 1t9v:A, 1t9w:A, 1t9x:A, 1t9y:A, 4u8v:B, 4u8y:B, 4u95:B, 2w1b:A, 3w9h:B, 4zjl:D, 4zjo:A, 4zjo:D, 4zjq:A, 4zjq:D, 6zo5:B, 6zo5:C, 6zo6:B, 6zo6:C, 6zo7:A, 6zo7:B, 6zo8:B, 6zo8:C, 6zo9:B, 6zob:A, 6zoc:A, 6zoc:B, 6zod:A, 6zod:B, 6zof:B, 6zog:B, 6zoh:A, 6zoh:B, 6zoh:C
2 6iia:B 1030 1029 0.7037 0.7078 0.7085 0.0 6iia:E, 3w9j:B, 3w9j:E
3 8f4r:B 1033 1036 0.6612 0.6631 0.6612 0.0
4 7ry3:C 1048 1055 0.5917 0.5849 0.5810 0.0 7m4p:B
5 8dev:B 1043 1049 0.4990 0.4957 0.4929 0.0 8deu:B, 8dew:B, 6vks:B, 6vkt:B
6 7kgg:C 1020 1022 0.4875 0.4951 0.4941 0.0 7kgh:C, 7kgi:A, 7kgi:C
7 8gjk:C 1032 1035 0.4151 0.4167 0.4155 0.0 8gjl:C, 8gk0:C, 8gk4:C
8 7b8s:C 589 300 0.2896 0.5093 1.0000 0.0 7b8r:C, 7b8t:C, 5eno:C, 5enp:C, 5enq:C, 5enr:C, 5ens:C, 5ent:C
9 7b8s:C 589 297 0.2809 0.4941 0.9798 0.0 7b8r:C, 7b8t:C, 5eno:C, 5enp:C, 5enq:C, 5enr:C, 5ens:C, 5ent:C
10 4dnr:A 1031 1059 0.2239 0.2250 0.2191 4.59e-52 3k0i:A, 7kf6:A, 7kf6:B, 7kf6:C, 7kf7:B, 7kf8:B, 7kf8:C, 3t53:A
11 4dnr:A 1031 541 0.1226 0.1232 0.2348 2.53e-06 3k0i:A, 7kf6:A, 7kf6:B, 7kf6:C, 7kf7:B, 7kf8:B, 7kf8:C, 3t53:A
12 8qec:A 1101 82 0.0222 0.0209 0.2805 3.06e-05 9f40:A, 9f40:D, 9f40:B, 9f40:C, 9f41:C, 9f41:D, 9f41:A, 9f41:B, 8qeb:A, 8qed:A, 8qee:A, 6r4l:A
13 6ly5:F 180 73 0.0193 0.1111 0.2740 1.6 6l4u:4
14 6ks0:A 286 126 0.0251 0.0909 0.2063 1.8 6krz:A, 6krz:B, 6krz:C, 5lxg:A
15 3ge6:A 210 129 0.0357 0.1762 0.2868 3.7 3ge6:B
16 6eo4:A 463 95 0.0251 0.0562 0.2737 5.4 6eo4:B, 6eo5:A, 6eo5:B
17 3kkz:A 256 90 0.0270 0.1094 0.3111 7.0 3kkz:B
18 6tl4:A 496 55 0.0164 0.0343 0.3091 7.4
19 7rpk:A 953 150 0.0347 0.0378 0.2400 7.9 7rph:A, 7rpi:A, 7rpj:A

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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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