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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
GGNLPDVASHYPVAYEQTLDGTVGFVIDEMTPERATASVEVTDTLRQRWGLVAGGAYCALAEMLATEATVAVVHEKGMMA
VGQSNHTSFFRPVKEGHVRAEAVRIHAGSTTWFWDVSLRDDAGRLCAVSSMSIAVRPRRD

The query sequence (length=140) 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 1q4s:A 142 140 0.9929 0.9789 0.9929 1.81e-101 1q4s:B, 1q4t:A, 1q4t:B, 1q4u:A, 1q4u:B, 3r32:A, 3r32:B, 3r34:A, 3r34:B, 3r35:A, 3r35:B, 3r37:A, 3r37:B, 3r3a:A, 3r3a:B, 3r3b:A, 3r3b:B, 3r3c:A, 3r3c:B, 3r3d:A, 3r3d:B, 3r3f:A, 3r3f:B, 3tea:A, 3tea:B
2 4qd8:C 139 133 0.2857 0.2878 0.3008 2.47e-13 4qd8:E, 4qd8:F, 4qd8:D, 4qd9:C, 4qd9:D, 4qd9:F, 4qd9:E
3 5hmc:A 125 107 0.2786 0.3120 0.3645 2.48e-13
4 4m20:A 121 111 0.2214 0.2562 0.2793 2.06e-12 4m20:B, 4m20:D, 4m20:C
5 4k4c:A 137 120 0.2571 0.2628 0.3000 5.53e-11 4k4c:B, 4k4c:D, 4k4c:C, 4k4d:A, 4k4d:B
6 4k49:C 136 116 0.2429 0.2500 0.2931 3.30e-09 4k49:B, 4k49:D, 4k49:A, 4k4a:A, 4k4a:B, 4k4a:D, 4k4a:C, 4k4b:A, 4k4b:B, 4k4b:C, 4k4b:D, 4k4b:E, 4k4b:F, 4k4b:G, 4k4b:H
7 7ljm:A 348 50 0.1143 0.0460 0.3200 0.24 7ljm:B
8 5kc1:F 61 44 0.1143 0.2623 0.3636 0.29 5kc1:D, 5kc1:B, 5kc1:L, 5kc1:J
9 6c7n:D 389 55 0.1357 0.0488 0.3455 0.95
10 6rxd:A 509 56 0.1214 0.0334 0.3036 3.6 6rxd:B, 6rxe:A, 6rxe:B, 6rxf:A, 6rxf:B, 6rxg:A, 6rxg:B
11 4od5:A 274 47 0.1286 0.0657 0.3830 6.7 4od5:B, 4od5:C, 4od5:D, 4od5:E
12 2fue:A 246 41 0.1071 0.0610 0.3659 6.7 6cfr:A, 6cfs:A, 6cft:A, 6cfu:A, 6cfv:A, 2fuc:A
13 2zan:A 312 31 0.0786 0.0353 0.3548 6.8 7l9x:A, 2zao:A
14 8a1r:A 593 21 0.0714 0.0169 0.4762 9.8 8a1r:B, 7b02:A, 6fmu:A, 6fmz:A, 6fp4:A, 6ftc:A, 3h4k:A, 4la1:A, 4la1:B, 7npx:A, 7npx:B, 8pdd:A, 8pdd:B, 8pl0:A, 8pl0:B, 8pl1:A, 8pl1:B, 8pl2:A, 8pl2:B, 8pl3:A, 8pl3:B, 8pl4:A, 8pl4:B, 8pl5:A, 8pl5:B, 8pl6:A, 8pl7:A, 8pl7:B, 8pl8:A, 8pl9:A, 8pl9:B, 8pla:A, 8pla:B, 8plb:A, 8plb:B, 8plc:A, 8plc:B, 8pld:A, 8pld:B, 8ple:A, 8ple:B, 8plf:A, 8plf:B, 8plg:A, 8plh:A, 8pli:A, 8pli:B, 8plj:A, 8plj:B, 8plk:A, 8plk:B, 8pll:A, 8plm:A, 8pln:A, 8plo:A, 8plo:B, 8plp:A, 8plp:B, 8plq:A, 8plq:B, 8plr:A, 8plr:B, 8pls:A, 8pls:B, 8plt:A, 8plt:B, 8plu:A, 8plu:B, 8plv:A, 8plv:B, 8plw:A, 8plw:B, 8plx:A, 8plx:B, 8ply:A, 8ply:B, 6rtj:A, 6rtm:A, 6rto:A, 2v6o:A, 2x8c:A, 2x8c:B, 2x8g:A, 2x8h:A, 2x99:A, 6zlb:A, 6zlp:A, 6zp3:A, 6zst: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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