RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8602
(140 letters)
>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 = 82.3 bits (203), Expect = 2e-19
Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 51 IDLTKYRSDYCSEDEDEGVAPYELNLEDNRYELCSVIKHSGLNIDVGHYTTYI-SQHKRW 109
+++ Y S + E D YEL ++ H G ++ GHY + +W
Sbjct: 391 LNMKNYCSTKEKDKHSENGKV-----PDIIYELIGIVSHKG-TVNEGHYIAFCKISGGQW 444
Query: 110 FLCDDTKIKPVGITDVLNSEAYMLVYEKK 138
F +D+ + + +VL +AY+L Y +
Sbjct: 445 FKFNDSMVSSISQEEVLKEQAYLLFYTIR 473
Score = 37.6 bits (87), Expect = 6e-04
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 4/50 (8%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQY----CFLCKIEALFNEFYNG 46
M+ ILQ H P +S IH CF C ++ + +E Y
Sbjct: 153 MSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
>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 = 71.1 bits (173), Expect = 1e-15
Identities = 17/102 (16%), Positives = 38/102 (37%), Gaps = 2/102 (1%)
Query: 36 IEALFNEFYNGNVEPIDLTKYRSDYCSEDEDEGVAPYELNLEDNRYELCSVIKHSGLNID 95
++ +F+ + + E + ++ +Y+L + I H G +
Sbjct: 752 VDWIFSHIDDLDAEAAMDISEGRSAADSISESVPVGPKVRDGPGKYQLFAFISHMGTSTM 811
Query: 96 VGHYTTYISQHKRWFLCDDTKIKPVGITDVLNSEAYMLVYEK 137
GHY +I + RW + +D K+ Y+ Y++
Sbjct: 812 CGHYVCHIKKEGRWVIYNDQKV--CASEKPPKDLGYIYFYQR 851
Score = 43.7 bits (102), Expect = 5e-06
Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 7/81 (8%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLD-----QYCFLCKIEALFNEFYNGNVEPIDLTK 55
+N ++Q +P + ++ + K + F ++ L + +G
Sbjct: 356 LNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLSGEYSKPVPES 415
Query: 56 YRSDYCSEDED--EGVAPYEL 74
+ E ++ +G+AP
Sbjct: 416 GDGERVPEQKEVQDGIAPRMF 436
>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 = 68.5 bits (167), Expect = 1e-14
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 62 SEDEDEGVAPYELNLEDNRYELCSVIKHSGLNIDVGHYTTYI-SQHKRWFLCDDTKIKPV 120
+ E A + Y+L +V+ H G + GHY +++ + W DD K+ V
Sbjct: 309 VKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIV 368
Query: 121 GITDVLNSE-------AYMLVYEKKVL 140
D+L AY+L+Y + +
Sbjct: 369 TPEDILRLSGGGDWHIAYVLLYGPRRV 395
Score = 40.4 bits (94), Expect = 7e-05
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 7/62 (11%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLD-----QYCFLCKIEALFNEFYNGN--VEPIDL 53
MN +Q VP +++ + + LF+ + + PI L
Sbjct: 26 MNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDKTSSSIPPIIL 85
Query: 54 TK 55
+
Sbjct: 86 LQ 87
>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 = 67.9 bits (166), Expect = 2e-14
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 77 EDNRYELCSVIKHSGLNIDVGHYTTYI--SQHKRWFLCDDTKIKPVGITDVLNSEAYMLV 134
Y L +V HSG GHYT Y W +D+ + P+ + V S+AY+L
Sbjct: 280 NHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLF 338
Query: 135 YEKK 138
YE
Sbjct: 339 YELA 342
Score = 44.0 bits (104), Expect = 3e-06
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQY-----CFLCKIEALFNEFYNGN 47
MN ILQ S+ +R++ L ++ L + + L + +
Sbjct: 21 MNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWTSS 72
>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 = 65.4 bits (159), Expect = 1e-13
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 77 EDNRYELCSVIKHSGLNIDVGHYTTYISQHKRWFLCDDTKIKPVGITDVLNSEAYMLVYE 136
Y+L ++ HSG ++ GHYT W + +D+++ PV V +SE Y+L Y+
Sbjct: 290 GSPVYQLYALCNHSG-SVHYGHYTALCRCQTGWHVYNDSRVSPVSENQVASSEGYVLFYQ 348
Query: 137 KK 138
Sbjct: 349 LM 350
Score = 33.9 bits (77), Expect = 0.011
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQYCFLCKIEALFNEFY 44
+N +LQ S +R+F L + ++ ++ F +
Sbjct: 15 LNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVI 58
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 63.4 bits (154), Expect = 6e-13
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 75 NLEDNRYELCSVIKHSGLNIDVGHYTTYISQHK--RWFLCDDTKIKPVGITDVLNSEAYM 132
+ Y+L +V H G + VGHYT Y +W+ DD+ + ++ AY+
Sbjct: 294 SARPYVYDLIAVSNHYG-AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYV 352
Query: 133 LVYEKK 138
L Y+++
Sbjct: 353 LFYQRR 358
Score = 39.2 bits (91), Expect = 2e-04
Identities = 9/65 (13%), Positives = 26/65 (40%), Gaps = 7/65 (10%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQY-------CFLCKIEALFNEFYNGNVEPIDL 53
MN LQ S+ + ++FL ++ ++++ L + ++G +
Sbjct: 20 MNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQMWSGRDAHVAP 79
Query: 54 TKYRS 58
+++
Sbjct: 80 RMFKT 84
>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 = 62.2 bits (151), Expect = 1e-12
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 13/82 (15%)
Query: 58 SDYCSEDEDEGVAPYELNLEDNRYELCSVIKHSGLNIDVGHYTTYI--SQHKRWFLCDDT 115
S Y ++ +Y L SV H G +D GHYT Y + +RWF DD
Sbjct: 324 SQYVIGPKNN----------LKKYNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDH 372
Query: 116 KIKPVGITDVLNSEAYMLVYEK 137
++ + ++ V +S AY+L Y
Sbjct: 373 EVSDISVSSVKSSAAYILFYTS 394
Score = 41.8 bits (98), Expect = 2e-05
Identities = 10/45 (22%), Positives = 20/45 (44%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQYCFLCKIEALFNEFYN 45
MN ILQ + P + ++F ++ +++ L + EF
Sbjct: 74 MNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGI 118
>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 = 56.1 bits (134), Expect = 2e-10
Identities = 23/128 (17%), Positives = 40/128 (31%), Gaps = 11/128 (8%)
Query: 23 HKCKLDQYCFLCKIEALFNEFYNGNVEPIDLTKYRSDYCSEDEDEGVAPYELNLEDNRYE 82
+ + E Y V + K + + + Y
Sbjct: 289 EIKRRKFDPSSSENVMTPREQYETQVALNESEKDQWLEE-YKKHFPPNLEKGENPSCVYN 347
Query: 83 LCSVIKHSGLNIDVGHYTTYISQHK---RWFLCDDTKIKPVGITDVLN-------SEAYM 132
L VI H G N + GHY +I +W+ +D K+ V + + A +
Sbjct: 348 LIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALI 407
Query: 133 LVYEKKVL 140
L+Y+ L
Sbjct: 408 LMYKGFGL 415
Score = 29.9 bits (66), Expect = 0.27
Identities = 9/61 (14%), Positives = 21/61 (34%), Gaps = 9/61 (14%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQY---------CFLCKIEALFNEFYNGNVEPI 51
+N LQA V +R+ L+ + + +++ F N + + +
Sbjct: 36 LNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEMKRCFENLQNKSFKSV 95
Query: 52 D 52
Sbjct: 96 L 96
>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 = 51.4 bits (123), Expect = 9e-09
Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 27/98 (27%)
Query: 58 SDYCSEDEDEGVAPYELNLEDNRYELCSVIKHSGLNIDVGHYTTYI--SQHKRWFLCDDT 115
++ + + + + Y L +V+ HSG + GHY Y+ +W DD
Sbjct: 227 DEFLQKTDPK---------DPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDD 276
Query: 116 KIKPVGITDVLNSE---------------AYMLVYEKK 138
+ + + AYMLVY ++
Sbjct: 277 VVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE 314
Score = 40.2 bits (94), Expect = 6e-05
Identities = 11/69 (15%), Positives = 22/69 (31%), Gaps = 1/69 (1%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQYCFLCKIEALFNEFYNGNVEPIDLTKYRSDY 60
MN +LQ +R + ++ +F E + + P+ K +
Sbjct: 18 MNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDK-PVGTKKLTKSF 76
Query: 61 CSEDEDEGV 69
E D +
Sbjct: 77 GWETLDSFM 85
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 50.0 bits (119), Expect = 4e-08
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 28/95 (29%)
Query: 71 PYELNL----------EDNRYELCSVIKHSGLNIDVGHYTTYI--SQHKRWFLCDDTKIK 118
P +L L + Y L +V+ HSG + GHY Y+ +W DD +
Sbjct: 390 PEQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVS 448
Query: 119 PVGITDVLNSE---------------AYMLVYEKK 138
+ + AYMLVY ++
Sbjct: 449 RCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRE 483
Score = 38.4 bits (89), Expect = 3e-04
Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 1/69 (1%)
Query: 1 MNVILQAFSHVPLIRNFFLSTIHKCKLDQYCFLCKIEALFNEFYNGNVEPIDLTKYRSDY 60
MN +LQ +R + ++ +F E + + +P+ K +
Sbjct: 187 MNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSD-KPVGTKKLTKSF 245
Query: 61 CSEDEDEGV 69
E D +
Sbjct: 246 GWETLDSFM 254
>3hq1_A 2-isopropylmalate synthase; LEUA, mycobacterium tuberculosis
inhibition, bromopyruvate, amino-acid biosynthesis; HET:
FLC; 1.70A {Mycobacterium tuberculosis} PDB: 1sr9_A
3hpz_A 3hps_A* 3fig_A 3u6w_A 3hpx_A
Length = 644
Score = 30.1 bits (68), Expect = 0.20
Identities = 11/76 (14%), Positives = 22/76 (28%), Gaps = 11/76 (14%)
Query: 36 IEALFNEFYNGNVEPIDLTKYRSDYCSEDEDEGVAPYELNLEDNRYELCSV--------- 86
+ F E Y V P++ + D +D + + E+
Sbjct: 480 MWDAFAEEYLAPVRPLERIRQHVDAADDDGGTTSITATVKINGVETEISGSGNGPLAAFV 539
Query: 87 --IKHSGLNIDVGHYT 100
+ G ++ V Y
Sbjct: 540 HALADVGFDVAVLDYY 555
>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 = 29.1 bits (64), Expect = 0.57
Identities = 16/106 (15%), Positives = 34/106 (32%), Gaps = 24/106 (22%)
Query: 21 TIHKCKLDQYCFLCKIEALFNEFYNGNVEPIDLTKYRSDY-----CSEDEDEGVAPYELN 75
+H+ +D Y F + ++ P L +Y + + + E + + +
Sbjct: 444 ALHRSIVDHYNIPKT-------FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 76 LEDNRYELCSVIKHSGLN-----------IDVGHYTTYISQHKRWF 110
D R+ L I+H + Y YI + +
Sbjct: 497 FLDFRF-LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541
Score = 29.1 bits (64), Expect = 0.62
Identities = 17/101 (16%), Positives = 31/101 (30%), Gaps = 37/101 (36%)
Query: 10 HVPLIRNFFLSTIHKCKLDQYCF------LCKIE-----ALFNEFY-------------- 44
H + + F + LDQY + L IE LF +
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS 511
Query: 45 -----NGNVEP--IDLTKYRSDYCSEDEDEGVAPYELNLED 78
+G++ L Y+ Y +++ + YE +
Sbjct: 512 TAWNASGSILNTLQQLKFYK-PYICDNDPK----YERLVNA 547
>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 = 28.6 bits (63), Expect = 0.57
Identities = 5/18 (27%), Positives = 7/18 (38%)
Query: 94 IDVGHYTTYISQHKRWFL 111
I Y Y S+ R +
Sbjct: 104 IRPDGYNVYRSEKHRLPV 121
>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 = 27.0 bits (59), Expect = 1.8
Identities = 5/18 (27%), Positives = 7/18 (38%)
Query: 94 IDVGHYTTYISQHKRWFL 111
I Y Y S+ R +
Sbjct: 92 IRPDGYNVYRSEKHRLPV 109
>2r58_A Polycomb protein SCM; MBT repeat, sex COMB on midleg, DI-methyl
lysine, regulator, developmental protein, metal-binding,
nucleus; HET: MLY; 2.00A {Drosophila melanogaster} PDB:
2r57_A* 2r5a_A* 2r5m_A*
Length = 265
Score = 25.7 bits (56), Expect = 5.4
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 84 CSVIKHSGLNIDVGHYTTYISQHKRWFLCDDTKIKPVG 121
+V+ G + + SQ+ W L D T+I +G
Sbjct: 55 ATVVGVLGSRLRL-RLDGSDSQNDFWRLVDSTEIHAIG 91
>1oz2_A Lethal(3)malignant brain tumor-like protein; propeller,
transcription repressor, three malignant brain TU
repeats, transcription; HET: MES; 1.55A {Homo sapiens}
SCOP: b.34.9.3 b.34.9.3 b.34.9.3 PDB: 1oyx_A* 1oz3_A*
3oq5_A* 2rhi_A* 2rhx_A* 2rjd_A 2rjc_A 2rje_A* 2rjf_A*
3uwn_A* 2pqw_A* 3p8h_A* 2rhu_A* 2rhy_A* 2rhz_A* 2ri3_A*
2ri2_A* 2ri5_A*
Length = 331
Score = 25.4 bits (55), Expect = 8.4
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 80 RYELCSVIKHSGLNIDVGHYTTYISQHKRWFLCDDTKIKPVG 121
Y + +V + G + + H+ Y H W + I P G
Sbjct: 58 MYFILTVAEVCGYRLRL-HFDGYSECHDFWVNANSPDIHPAG 98
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
0.323 0.140 0.434
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,118,583
Number of extensions: 113571
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 203
Number of HSP's successfully gapped: 31
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.0 bits)