RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10717
(107 letters)
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 121 bits (306), Expect = 5e-35
Identities = 50/94 (53%), Positives = 62/94 (65%), Gaps = 3/94 (3%)
Query: 8 RFT-SDGWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ + W K T V+FP+ LNMSE+ N +R YDL AVSNHYG M GHYTAY
Sbjct: 262 RFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSNHYGAMGVGHYTAYA 321
Query: 67 RN--NYKWYKFDDSDVSEISASKVKSPAAYILFY 98
+N N KWY FDDS+VS S ++ + AAY+LFY
Sbjct: 322 KNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFY 355
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease,
substrate ENZY complex, hydrolase-protein binding
complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A
2ibi_A
Length = 348
Score = 120 bits (303), Expect = 1e-34
Identities = 40/94 (42%), Positives = 61/94 (64%), Gaps = 4/94 (4%)
Query: 8 RFTSDGWCRKK-QTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ K T V+FP+ +L++ E+ + + Y+LYAVSNH GT GHYTAYC
Sbjct: 247 RFSESRIRTSKLTTFVNFPLRDLDLREFA-SENTNHAVYNLYAVSNHSGTTMGGHYTAYC 305
Query: 67 RNNY--KWYKFDDSDVSEISASKVKSPAAYILFY 98
R+ +W+ F+DS V+ +S+S+V++ AY+LFY
Sbjct: 306 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 339
>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease,
UBL conjugation pathway deubiquitinating enzyme, DUB,
zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB:
3n3k_A
Length = 396
Score = 117 bits (294), Expect = 5e-33
Identities = 51/94 (54%), Positives = 74/94 (78%), Gaps = 3/94 (3%)
Query: 8 RFTSDGWCRKK-QTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ DG ++K QT+VDFP++NL++S+Y + ++ +Y+L++VSNHYG ++ GHYTAYC
Sbjct: 299 RFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYC 358
Query: 67 RNNYK--WYKFDDSDVSEISASKVKSPAAYILFY 98
+N + W+KFDD +VS+IS S VKS AAYILFY
Sbjct: 359 KNAARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex,
hydrolase-transcription regulator-Pro binding complex,
acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae}
PDB: 3mhh_A 3m99_A
Length = 476
Score = 115 bits (289), Expect = 5e-32
Identities = 38/104 (36%), Positives = 53/104 (50%), Gaps = 13/104 (12%)
Query: 8 RF--TSDGWCRKKQTTVDFPVDNLNMSEYTVNSESR---------DVRYDLYAVSNHYGT 56
RF +G RK ++FP LNM Y E D+ Y+L + +H GT
Sbjct: 369 RFEHLLNGSNRKLDDFIEFP-TYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGT 427
Query: 57 MESGHYTAYCRN-NYKWYKFDDSDVSEISASKVKSPAAYILFYM 99
+ GHY A+C+ +W+KF+DS VS IS +V AY+LFY
Sbjct: 428 VNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYT 471
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural
genomics consortium, SGC, activator, alternative
splicing, chromatin regulator, nucleus, polymorphism,
protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A
Length = 355
Score = 113 bits (284), Expect = 7e-32
Identities = 35/92 (38%), Positives = 56/92 (60%), Gaps = 2/92 (2%)
Query: 8 RFTSD-GWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF++ G +K VDFP+ L++ ++ + ++ Y LYA+ NH G++ GHYTA C
Sbjct: 257 RFSASRGSIKKSSVGVDFPLQRLSLGDF-ASDKAGSPVYQLYALCNHSGSVHYGHYTALC 315
Query: 67 RNNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
R W+ ++DS VS +S ++V S Y+LFY
Sbjct: 316 RCQTGWHVYNDSRVSPVSENQVASSEGYVLFY 347
>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes,
DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo
sapiens} SCOP: d.3.1.9 PDB: 2ayo_A
Length = 404
Score = 84.7 bits (209), Expect = 6e-21
Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 9/91 (9%)
Query: 17 KKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYG-TMESGHYTAYCRN-NYKWYK 74
K+++ V S + YDL AV H G + SGHY ++ + +W K
Sbjct: 300 DKKSSPQKEVKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIK 359
Query: 75 FDDSDVSEISASKVKSPA-------AYILFY 98
FDD VS ++ + + AY+L Y
Sbjct: 360 FDDDKVSIVTPEDILRLSGGGDWHIAYVLLY 390
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 80.7 bits (199), Expect = 1e-19
Identities = 31/113 (27%), Positives = 44/113 (38%), Gaps = 22/113 (19%)
Query: 8 RFTSD--GWCRKKQTT-VDFPVDNLNMSEYTVNSESRD-VRYDLYAVSNHYGTMESGHYT 63
RF D K +FP + L + E+ ++ +D Y L+AV H G GHY
Sbjct: 201 RFMYDPQTDQNIKINDRFEFP-EQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYV 259
Query: 64 AYCR--NNYKWYKFDDSDVSEISASKV---------------KSPAAYILFYM 99
Y + KW KFDD VS + + AY+L Y+
Sbjct: 260 VYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYI 312
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 78.9 bits (194), Expect = 8e-19
Identities = 31/113 (27%), Positives = 44/113 (38%), Gaps = 22/113 (19%)
Query: 8 RFTSD--GWCRKKQTT-VDFPVDNLNMSEYTVNSESRDV-RYDLYAVSNHYGTMESGHYT 63
RF D K +FP + L + E+ ++ +D Y L+AV H G GHY
Sbjct: 370 RFMYDPQTDQNIKINDRFEFP-EQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYV 428
Query: 64 AYCR--NNYKWYKFDDSDVSEISASKV---------------KSPAAYILFYM 99
Y + KW KFDD VS + + AY+L Y+
Sbjct: 429 VYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYI 481
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 74.2 bits (181), Expect = 4e-17
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 37 NSESRDVRYDLYAVSNHYGT-MESGHYTAYCRNNYKWYKFDDSDVSEISASKVKSPAAYI 95
+Y L+A +H GT GHY + + +W ++D V + K YI
Sbjct: 789 KVRDGPGKYQLFAFISHMGTSTMCGHYVCHIKKEGRWVIYNDQKVCA--SEKPPKDLGYI 846
Query: 96 LFY 98
FY
Sbjct: 847 YFY 849
>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9
Length = 415
Score = 56.8 bits (136), Expect = 5e-11
Identities = 27/107 (25%), Positives = 42/107 (39%), Gaps = 11/107 (10%)
Query: 3 DDDGHRFTSDGWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYG-TMESGH 61
++ + + + + E+ Y+L V H G ESGH
Sbjct: 304 MTPREQYETQVALNESEKDQWLEEYKKHFPPNLEKGENPSCVYNLIGVITHQGANSESGH 363
Query: 62 YTAYCRNNY---KWYKFDDSDVSEISASKV-------KSPAAYILFY 98
Y A+ R+ KWYKF+D VS + K+ +S +A IL Y
Sbjct: 364 YQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMY 410
>2fe8_A PP1AB, ORF1AB, replicase polyprotein 1AB; protease, hydrolase;
1.85A {Sars coronavirus} PDB: 3e9s_A* 3mj5_A*
Length = 315
Score = 25.6 bits (55), Expect = 4.0
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 2/55 (3%)
Query: 36 VNSESRDVRYDLYAVSNHY-GTMESGHYTAYCRNNYKWYKFDDSDVSEISASKVK 89
++ + +N Y G + GHYT Y+ D + ++++S K
Sbjct: 247 APPAEYKLQQGTFLCANEYTGNYQCGHYTHIT-AKETLYRIDGAHLTKMSEYKGP 300
>2p23_A FGF-19, fibroblast growth factor 19; atypical beta-trefoil fold,
signaling protein; 1.80A {Homo sapiens} SCOP: b.42.1.1
Length = 194
Score = 25.1 bits (54), Expect = 5.3
Identities = 2/18 (11%), Positives = 5/18 (27%)
Query: 56 TMESGHYTAYCRNNYKWY 73
+ Y Y ++
Sbjct: 103 EIRPDGYNVYRSEKHRLP 120
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 25.2 bits (54), Expect = 5.9
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 11/48 (22%)
Query: 7 HRFTSDGW----CRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAV 50
T D W C K T ++ ++ L +EY R +D +V
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEY------RK-MFDRLSV 380
>1pwa_A FGF-19, fibroblast growth factor-19; beta trefoil, disulphide
bonds, hormone-growth factor comple; 1.30A {Homo
sapiens} SCOP: b.42.1.1
Length = 162
Score = 24.7 bits (53), Expect = 6.2
Identities = 2/18 (11%), Positives = 5/18 (27%)
Query: 56 TMESGHYTAYCRNNYKWY 73
+ Y Y ++
Sbjct: 91 EIRPDGYNVYRSEKHRLP 108
>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 369
Score = 24.9 bits (54), Expect = 6.9
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 3/47 (6%)
Query: 34 YTVNSESRDVRYDLYAVSNHYGTME---SGHYTAYCRNNYKWYKFDD 77
N +V Y + G + + + C N ++ FD
Sbjct: 95 QNNNDGQYNVAYFCNVLVRPNGYVTWLPPAIFRSSCPINVLYFPFDW 141
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 24.8 bits (54), Expect = 7.5
Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 3/43 (6%)
Query: 39 ESRDVRYDLYAVSNHYGTME---SGHYTAYCRNNYKWYKFDDS 78
S ++ + + H G + S Y + C ++ FD
Sbjct: 98 GSFEITLHVNVLVQHTGAVSWHPSAIYRSSCTIKVMYFPFDWQ 140
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 24.7 bits (53), Expect = 8.4
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 3/47 (6%)
Query: 34 YTVNSESRDVRYDLYAVSNHYGTME---SGHYTAYCRNNYKWYKFDD 77
N +V Y + G + + + C N ++ FD
Sbjct: 116 QNNNDGQYNVAYFCNVLVRPNGYVTWLPPAIFRSSCPINVLYFPFDW 162
>2p39_A Fibroblast growth factor 23; atypical beta-trefoil fold, signaling
protein; HET: SCR; 1.50A {Homo sapiens}
Length = 155
Score = 24.2 bits (52), Expect = 9.5
Identities = 3/18 (16%), Positives = 4/18 (22%)
Query: 56 TMESGHYTAYCRNNYKWY 73
Y Y Y +
Sbjct: 94 QTLENGYDVYHSPQYHFL 111
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.133 0.411
Gapped
Lambda K H
0.267 0.0513 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,630,137
Number of extensions: 77930
Number of successful extensions: 201
Number of sequences better than 10.0: 1
Number of HSP's gapped: 182
Number of HSP's successfully gapped: 35
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.9 bits)