RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10716
(123 letters)
>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 = 98.4 bits (245), Expect = 8e-26
Identities = 41/90 (45%), Positives = 54/90 (60%), Gaps = 2/90 (2%)
Query: 8 SYRINIIFWTVGPGLTGLKNLGNTCYINSILQCLSNTSPLREYFVT-EFKRSMTAAYSK- 65
+N +F GP LTGL+NLGNTCY+NSILQCL N L +YF ++ + +
Sbjct: 48 IRNLNPVFGGSGPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLG 107
Query: 66 TSGKLAEEFQLIFNMLWAGDSRYFSPQKFK 95
G++AEEF +I LW G RY SP+ FK
Sbjct: 108 HKGEVAEEFGIIMKALWTGQYRYISPKDFK 137
>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 = 94.1 bits (234), Expect = 2e-24
Identities = 33/81 (40%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 16 WTVGPGLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQ 75
GL GL+NLGNTC++NSILQCLSNT LR+Y + S L EEF
Sbjct: 3 SKSAQGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFA 62
Query: 76 LIFNMLWAGDSR-YFSPQKFK 95
+ +W SP +FK
Sbjct: 63 KLIQTIWTSSPNDVVSPSEFK 83
>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 = 90.1 bits (223), Expect = 1e-22
Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 17 TVGPGLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQL 76
+ GL NLGNTCY+N+ +QC+ + L++ + ++ + +
Sbjct: 9 SAMELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRD 68
Query: 77 IFNMLWAGDSRYFSPQKFK 95
+F+ + S P
Sbjct: 69 LFDSMDKT-SSSIPPIILL 86
>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 = 90.7 bits (224), Expect = 1e-22
Identities = 21/90 (23%), Positives = 43/90 (47%)
Query: 19 GPGLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIF 78
GPG TG++NLGN+CY+NS++Q L + + +V + ++ A + + + + +
Sbjct: 341 GPGYTGIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLG 400
Query: 79 NMLWAGDSRYFSPQKFKVKHELVGKFKVKV 108
+ L +G+ P+ + K
Sbjct: 401 HGLLSGEYSKPVPESGDGERVPEQKEVQDG 430
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 85.0 bits (210), Expect = 6e-21
Identities = 33/80 (41%), Positives = 51/80 (63%), Gaps = 2/80 (2%)
Query: 18 VGPGLTGLKNLGNTCYINSILQCLSNTSPLREYFVT-EFKRSMTAAYSK-TSGKLAEEFQ 75
+ PGL GL NLGNTC++NS LQCLSNT+PL +YF+ E++ + G++AE +
Sbjct: 4 IQPGLCGLGNLGNTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYA 63
Query: 76 LIFNMLWAGDSRYFSPQKFK 95
+ +W+G + +P+ FK
Sbjct: 64 ELIKQMWSGRDAHVAPRMFK 83
>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 = 83.2 bits (205), Expect = 3e-20
Identities = 29/76 (38%), Positives = 45/76 (59%), Gaps = 2/76 (2%)
Query: 21 GLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFNM 80
G GL+NLGNTC++N++LQCLS+T PLR++ + R + + +L E F +
Sbjct: 2 GHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGR-AQELTEAFADVIGA 60
Query: 81 LWAGDS-RYFSPQKFK 95
LW DS +P +F+
Sbjct: 61 LWHPDSCEAVNPTRFR 76
>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 = 69.2 bits (168), Expect = 3e-15
Identities = 19/82 (23%), Positives = 32/82 (39%), Gaps = 4/82 (4%)
Query: 17 TVGPGLTGLKNLGNTCYINSILQCLSNTSPLREYF----VTEFKRSMTAAYSKTSGKLAE 72
G KN+GNTCY+N+ LQ L + LR+ ++ + A + ++
Sbjct: 19 QFAQLPVGFKNMGNTCYLNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVI 78
Query: 73 EFQLIFNMLWAGDSRYFSPQKF 94
E + F L + P
Sbjct: 79 EMKRCFENLQNKSFKSVLPVVL 100
>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 = 69.2 bits (169), Expect = 4e-15
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 20 PGLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFN 79
GL+GL N+G+TC+++SILQCL + + +++ + S + I +
Sbjct: 139 DGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSP-DKCFSCALDKIVH 197
Query: 80 MLWAGDSRYFSPQK 93
L+ + +
Sbjct: 198 ELYGALNTKQASSS 211
>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 = 64.9 bits (158), Expect = 1e-13
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 21 GLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFNM 80
G GLKN G TCY+NS+LQ L T+ LR+ M +S + Q +F
Sbjct: 5 GYVGLKNQGATCYMNSLLQTLFFTNQLRKAV-----YMMPTEGDDSSKSVPLALQRVFYE 59
Query: 81 LWAGDSRYFSPQKFK 95
L D + + K
Sbjct: 60 LQHSDKPVGTKKLTK 74
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 60.4 bits (146), Expect = 5e-12
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 21 GLTGLKNLGNTCYINSILQCLSNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFNM 80
G GLKN G TCY+NS+LQ L T+ LR+ M +S + Q +F
Sbjct: 174 GYVGLKNQGATCYMNSLLQTLFFTNQLRKAV-----YMMPTEGDDSSKSVPLALQRVFYE 228
Query: 81 LWAGDSRYFSPQKFK 95
L D + + K
Sbjct: 229 LQHSDKPVGTKKLTK 243
>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling,
linkage specificity, deubiquitinating enzyme, Lys63-
linked, anti-oncogene; 2.8A {Homo sapiens}
Length = 374
Score = 30.1 bits (67), Expect = 0.17
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 24 GLKNLGNTCYINSILQCLSNTSPLREYFVT-EFKRSMTAAYSKTSGKLAEEFQLIFNML 81
G++ N+CY++S L CL S + + + +++ YS+T L E I N L
Sbjct: 11 GIQGHYNSCYLDSTLFCLFAFSSVLDTVLLRPKEKNDVEYYSETQELLRTE---IVNPL 66
>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 = 26.0 bits (56), Expect = 5.1
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 9/30 (30%)
Query: 14 IFWTVGPGLTGLKNLGNTCYINSILQCLSN 43
IFW NL N ++L+ L
Sbjct: 184 IFWL---------NLKNCNSPETVLEMLQK 204
>3tg7_A Hexon protein, late protein 2; adenovirus structural protein, with
NEW finding featuring PO binding to human coagulation
factor X; 1.57A {Human adenovirus 5} PDB: 2bvi_F 1p30_A
1vsz_A 3iyn_A 1p2z_A* 2obe_A
Length = 951
Score = 25.7 bits (56), Expect = 5.6
Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 5/67 (7%)
Query: 42 SNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFNML-----WAGDSRYFSPQKFKV 96
T L + + S + Y + L F+ + W G+ R +P +F++
Sbjct: 685 KETPSLGSGYDPYYTYSGSIPYLDGTFYLNHTFKKVAITFDSSVSWPGNDRLLTPNEFEI 744
Query: 97 KHELVGK 103
K + G+
Sbjct: 745 KRSVDGE 751
>2iny_A Hexon protein, late protein 2; avian adenovirus, CELO, major coat
protein, crystal P nanotechnology, viral jelly roll,
viral protein; 3.90A {Fowl adenovirus 1}
Length = 942
Score = 25.3 bits (55), Expect = 7.9
Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 5/64 (7%)
Query: 42 SNTSPLREYFVTEFKRSMTAAYSKTSGKLAEEFQLIFNML-----WAGDSRYFSPQKFKV 96
S T L + FK S + YS + L+ F+ + + W G+ R +P F++
Sbjct: 656 SETPQLGAQYDVGFKYSGSIPYSDGTFYLSHTFRSMSVLFDTSINWPGNDRLLTPNLFEI 715
Query: 97 KHEL 100
K +
Sbjct: 716 KRPV 719
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 0.139 0.418
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,792,389
Number of extensions: 89692
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 208
Number of HSP's successfully gapped: 15
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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: 51 (23.4 bits)