RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13485
(152 letters)
>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 = 36.7 bits (85), Expect = 0.002
Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 11/78 (14%)
Query: 15 FENLSDVFHGCDNAAASTPLHQLVGVVTYYG----KHYSTFFFHTKLKVWIYFDDATVRE 70
F + + ++ L V + G HY+ + W F+D++V
Sbjct: 264 FPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHTFNDSSVTP 323
Query: 71 VGPRWEQVRSA-----FY 83
+ QVR++ FY
Sbjct: 324 MSS--SQVRTSDAYLLFY 339
>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 = 36.5 bits (84), Expect = 0.002
Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 26 DNAAASTPLHQLVGVVTYYGK-----HYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRS 80
D + + + L V+T+ G+ HY + K WI FDD V V P E +
Sbjct: 319 DIGSNNCGYYDLQAVLTHQGRSSSSGHY-VSWVKRKQDEWIKFDDDKVSIVTP--EDILR 375
Query: 81 AFYFFNSE 88
+
Sbjct: 376 LSGGGDWH 383
>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 = 36.0 bits (83), Expect = 0.002
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 25 CDNAAASTPLHQLVGVVTYYGK----HYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRS 80
+ + L V +YG HY+ + + + W FDD V ++ + +
Sbjct: 327 VIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSA 386
Query: 81 A---FY 83
A FY
Sbjct: 387 AYILFY 392
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 33.4 bits (76), Expect = 0.017
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 11/57 (19%)
Query: 36 QLVGVVTYYG----KHYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRSA-----FY 83
L+ V +YG HY+ + + W YFDD+ V +Q+ + FY
Sbjct: 301 DLIAVSNHYGAMGVGHYTAYAKNKLNGKWYYFDDSNVSLASE--DQIVTKAAYVLFY 355
>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 = 32.9 bits (75), Expect = 0.027
Identities = 14/81 (17%), Positives = 22/81 (27%), Gaps = 6/81 (7%)
Query: 25 CDNAAASTPLHQLVGVV----TYYGKHYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRS 80
+ L V+ +G HY + W FDD V E+
Sbjct: 231 QKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTK--EEAIE 288
Query: 81 AFYFFNSEYTLYSAAPKASLL 101
Y + + A +L
Sbjct: 289 HNYGGHDDDLSVRHCTNAYML 309
>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 = 32.3 bits (73), Expect = 0.045
Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 9/55 (16%)
Query: 36 QLVGVVTYYGK----HYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRSA---FY 83
QL + + G HY+ W ++D+ V V FY
Sbjct: 295 QLYALCNHSGSVHYGHYTALCRCQTG--WHVYNDSRVSPVSENQVASSEGYVLFY 347
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 31.9 bits (72), Expect = 0.068
Identities = 14/70 (20%), Positives = 21/70 (30%), Gaps = 6/70 (8%)
Query: 36 QLVGVV----TYYGKHYSTFFFHTKLKVWIYFDDATVREVGPRWEQVRSAFYFFNSEYTL 91
L V+ +G HY + W FDD V E+ Y + +
Sbjct: 411 ILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTK--EEAIEHNYGGHDDDLS 468
Query: 92 YSAAPKASLL 101
A +L
Sbjct: 469 VRHCTNAYML 478
>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 = 29.5 bits (66), Expect = 0.43
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 12/70 (17%)
Query: 23 HGCDNAAASTPLHQLVGVVTYYGK----HYSTFFFHTKLKVWIYFDDATVREVGPRWEQV 78
+N +++L+G+V++ G HY F W F+D+ V + E+V
Sbjct: 404 KHSENGKVPDIIYELIGIVSHKGTVNEGHY-IAFCKISGGQWFKFNDSMVSSISQ--EEV 460
Query: 79 RSA-----FY 83
FY
Sbjct: 461 LKEQAYLLFY 470
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 0.51
Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 27/70 (38%)
Query: 104 PLSLYKLEL-------------TR-PF----PSFSGCGEVQARPLP-AAP--TPILWGFT 142
P SLY L L +R PF FS R LP A+P + +L +
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS------NRFLPVASPFHSHLLVPAS 436
Query: 143 DFRFGDDLKS 152
D D +K+
Sbjct: 437 DLINKDLVKN 446
Score = 26.9 bits (59), Expect = 3.4
Identities = 24/140 (17%), Positives = 36/140 (25%), Gaps = 63/140 (45%)
Query: 28 AAASTPLHQLVGVVTYY------GKHYSTFFFHTK--------LKVWIYFDDATVREVGP 73
S PL ++ + Y G + K L A
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT------AVAIAETD 287
Query: 74 RWEQVRSAFYFFNSEYTLYSAAPKASLLPLPLSLYKLELTRPFPSFSGCGEVQARP---L 130
WE +F + + KA +T F F G +A P L
Sbjct: 288 SWE----SF---------FVSVRKA-------------ITVLF--FIGVRCYEAYPNTSL 319
Query: 131 PAA------------PTPIL 138
P + P+P+L
Sbjct: 320 PPSILEDSLENNEGVPSPML 339
>3pjx_A Cyclic dimeric GMP binding protein; ggdef-EAL tandem domain,
C-DI-GMP receptor, lyase; 2.00A {Pseudomonas
fluorescens} PDB: 3pjw_A 3pju_A* 3pjt_A* 3pfm_A
Length = 430
Score = 26.3 bits (59), Expect = 4.3
Identities = 5/17 (29%), Positives = 5/17 (29%), Gaps = 4/17 (23%)
Query: 121 GCGEVQ----ARPLPAA 133
G VQ P P
Sbjct: 414 GLYGVQGQLFGEPKPWG 430
>3gfz_A Klebsiella pneumoniae BLRP1; TIM-barrel, EAL domain, BLUF domain,
hydrolase, signaling PR; HET: C2E FMN; 2.05A {Klebsiella
pneumoniae subsp} PDB: 3gfy_A* 3gfx_A* 3gg0_A* 3gg1_A*
2kb2_A*
Length = 413
Score = 25.7 bits (57), Expect = 8.2
Identities = 6/23 (26%), Positives = 7/23 (30%), Gaps = 4/23 (17%)
Query: 121 GCGEVQ----ARPLPAAPTPILW 139
G Q +RP I W
Sbjct: 382 GIRLFQGFLFSRPCLNGIGEICW 404
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
0.324 0.140 0.459
Gapped
Lambda K H
0.267 0.0851 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,385,610
Number of extensions: 125796
Number of successful extensions: 284
Number of sequences better than 10.0: 1
Number of HSP's gapped: 283
Number of HSP's successfully gapped: 20
Length of query: 152
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,328,508
Effective search space: 290010036
Effective search space used: 290010036
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.0 bits)