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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
LSLTNSSLMPTLNPMIQQLALAIAASWQSLPLKPYQLPEDLGYVEGRLEGEKLVIENRCYQTPQFRKMHLELAKVGKGLD
ILHCVMFPEPLYGLPLFGCNIVAGPGGVSAAIADLSPTQSDRQLPAAYQKSLAELGQPEFEQQRELPPWGEIFSEYCLFI
RPSNVTEEERFVQRVVDFLQIHCHQSIVAEPLSEAQTLEHRQGQIHYCQQQQKNDKTRRVLEKAFGEAWAERYMSQVLFD
VIQ

The query sequence (length=243) 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 2d1e:A 243 243 0.9959 0.9959 0.9959 0.0 3ajg:A, 3ajg:B, 3ajh:A, 3ajh:B, 5b4h:A, 5b4i:A, 5b4j:A, 4eoc:A, 4eod:A, 4eoe:A, 3f0l:A, 3f0m:A, 3i8u:X, 3i94:A, 3i95:A, 3nb8:A, 3nb9:A, 4qcd:A, 7yk9:A, 7ykb:A
2 6qx6:A 264 211 0.2387 0.2197 0.2749 1.03e-17 6qx6:B
3 2x9o:A 233 212 0.2222 0.2318 0.2547 4.11e-11
4 6kme:A 284 179 0.1646 0.1408 0.2235 0.002 6kmd:A
5 4zxa:W 324 40 0.0576 0.0432 0.3500 0.38 4zxa:X, 4zxa:Y, 4zxa:Z, 4zxc:W, 4zxc:Z
6 5d00:A 361 77 0.0782 0.0526 0.2468 1.1 5d00:B, 5d01:A, 5d01:B
7 1ao8:A 162 29 0.0412 0.0617 0.3448 1.9 1bzf:A, 3dfr:A, 1dis:A, 1diu:A, 2hm9:A, 2hqp:A, 2lf1:A, 1lud:A
8 4s0r:D 447 75 0.0864 0.0470 0.2800 2.5 4lnf:A, 4lnf:B, 4lnf:C, 4lnf:D, 4lnf:E, 4lnf:F, 4lnf:G, 4lnf:H, 4lnf:I, 4lnf:J, 4lnf:K, 4lnf:L, 4lni:A, 4lni:B, 4lni:C, 4lni:D, 4lni:E, 4lni:F, 4lni:G, 4lni:H, 4lni:I, 4lni:J, 4lni:K, 4lni:L, 4lnk:A, 4lnk:B, 4lnk:C, 4lnk:D, 4lnk:E, 4lnk:F, 4lnn:A, 4lnn:B, 4lnn:C, 4lnn:D, 4lnn:E, 4lnn:F, 4lnn:G, 4lnn:H, 4lnn:I, 4lnn:J, 4lnn:K, 4lnn:L, 4lno:A, 4lno:B, 4lno:C, 4lno:D, 4lno:E, 4lno:F, 4s0r:A, 4s0r:C, 4s0r:F, 4s0r:G, 4s0r:I, 4s0r:E, 4s0r:L, 4s0r:M, 4s0r:J, 4s0r:K, 4s0r:N, 4s0r:B, 4s0r:H, 7tfc:B, 7tfc:C, 7tfc:Q, 7tfc:R, 7tfc:F, 7tfc:G, 7tfc:H, 7tfc:P, 7tfc:O, 7tfc:S, 7tfc:I, 7tfc:N, 7tfc:T, 7tfc:A
9 4ac8:A 311 44 0.0617 0.0482 0.3409 3.3 4ac8:B, 4ac8:C, 4ac8:D, 3ee4:A
10 7q1c:A 427 43 0.0576 0.0328 0.3256 4.6 7q1b:A, 7q1c:B
11 3acl:A 288 71 0.0905 0.0764 0.3099 5.1 4ero:A, 4ewa:A, 4ewd:A, 4ewe:A, 4gul:A, 6h1h:A, 6h1i:A, 4hlt:A, 1j1l:A, 5jct:A, 6n0j:A, 6n0k:A
12 7zr1:D 780 47 0.0658 0.0205 0.3404 6.3 7zr1:C
13 6rxu:UT 2033 42 0.0700 0.0084 0.4048 9.1 6rxv:UT, 6rxx:UT, 6rxz:UT
14 7r5j:D4 1312 69 0.0741 0.0137 0.2609 9.3 7r5j:D0, 7r5j:D1, 7r5j:D2, 7r5j:D3, 7r5j:D5, 7r5k:D4, 7r5k:D0, 7r5k:D1, 7r5k:D2, 7r5k:D3, 7r5k:D5
15 3hyv:A 429 168 0.1646 0.0932 0.2381 9.4 3hyv:B, 3hyv:C, 3hyv:D, 3hyv:E, 3hyv:F, 3hyw:A, 3hyw:B, 3hyw:C, 3hyw:D, 3hyw:E, 3hyw:F, 3hyx:A, 3hyx:B, 3hyx:C, 3hyx:D, 3hyx:E, 3hyx:F

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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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