BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 020876
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TMP|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|C Chain C, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|E Chain E, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|G Chain G, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
Length = 184
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 32/140 (22%), Positives = 64/140 (45%), Gaps = 12/140 (8%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + + DG CLFRA+A ++V ++ E+ +R +D L+K
Sbjct: 42 DKKGFIIKQMKEDGACLFRAVA--------DQVYGDQDMHEV---VRKHCMDYLMKNADY 90
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEE 291
++ DF TY+ ++ G E+ + + +P+ V+ + + I +
Sbjct: 91 FSNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGI 150
Query: 292 YQKDKESPINVLFHGYGHYD 311
+Q + E PI V +H HY+
Sbjct: 151 HQNEDE-PIRVSYHRNIHYN 169
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/140 (22%), Positives = 59/140 (42%), Gaps = 12/140 (8%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + DG CLFRA+A ++V ++ E+ +R D L K
Sbjct: 42 DKKGFIIKQXKEDGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADY 90
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEE 291
++ DF TY+ ++ G E + +P+ V+ + + I +
Sbjct: 91 FSNYVTEDFTTYINRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGI 150
Query: 292 YQKDKESPINVLFHGYGHYD 311
+Q + E PI V +H HY+
Sbjct: 151 HQNEDE-PIRVSYHRNIHYN 169
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 32/140 (22%), Positives = 60/140 (42%), Gaps = 17/140 (12%)
Query: 172 NERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKE 231
+++ F + DG CLFRA+A ++V ++ E+ +R D L K
Sbjct: 55 DKKGFIIKQXKEDGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADY 103
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEE 291
++ DF TY+ ++ G E + +P+ V+ Q S +N +
Sbjct: 104 FSNYVTEDFTTYINRKRKNNCHGNHIEXQAXAEXYNRPVEVY---QYSTEPINTFH---G 157
Query: 292 YQKDKESPINVLFHGYGHYD 311
++++ PI V +H HY+
Sbjct: 158 IHQNEDEPIRVSYHRNIHYN 177
>pdb|3C0R|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3C0R|C Chain C, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 68/142 (47%), Gaps = 22/142 (15%)
Query: 173 ERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKET 232
E V VL D CLF AIA+G + ++ R+L + + +V++ +K
Sbjct: 17 ENVLSVHPVLDDNSCLFHAIAYG--------IFKQDSVRDLREXVSKEVLNNPVKF---N 65
Query: 233 EWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEY 292
+ ++ Y + I + WGG E+ + S L +A+++V + + E++
Sbjct: 66 DAILDKPNKDYAQWILKXESWGGAIEIGIISDAL--AVAIYVVDIDAVKI-------EKF 116
Query: 293 QKDK-ESPINVLFHGYGHYDIL 313
+DK ++ I +LF+G HYD L
Sbjct: 117 NEDKFDNYILILFNGI-HYDSL 137
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 44/150 (29%), Positives = 69/150 (46%), Gaps = 25/150 (16%)
Query: 173 ERPFKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKR-RKE 231
E V VL D CLF AIA+G +Q + D LR V E+L K
Sbjct: 17 ENVLSVHPVLDDNSCLFHAIAYGIF-----------KQDSVRD-LREMVSKEVLNNPVKF 64
Query: 232 TEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEE 291
+ ++ Y + I + WGG E+ + S L +A+++V + + E+
Sbjct: 65 NDAILDKPNKDYAQWILKMESWGGAIEIGIISDAL--AVAIYVVDIDAVKI-------EK 115
Query: 292 YQKDK-ESPINVLFHGYGHYDILETFSEQK 320
+ +DK ++ I +LF+G HYD L T +E K
Sbjct: 116 FNEDKFDNYILILFNGI-HYDSL-TMNEFK 143
>pdb|1QGN|A Chain A, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|B Chain B, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|C Chain C, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|D Chain D, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|E Chain E, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|F Chain F, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|G Chain G, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1QGN|H Chain H, Cystathionine Gamma-Synthase From Nicotiana Tabacum
pdb|1I41|A Chain A, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|B Chain B, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|C Chain C, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|D Chain D, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|E Chain E, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|F Chain F, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|G Chain G, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|H Chain H, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|I Chain I, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|J Chain J, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|K Chain K, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I41|L Chain L, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Appa
pdb|1I43|A Chain A, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|B Chain B, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|C Chain C, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|D Chain D, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|E Chain E, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|F Chain F, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|G Chain G, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|H Chain H, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|I Chain I, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|J Chain J, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|K Chain K, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I43|L Chain L, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ppca
pdb|1I48|A Chain A, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|B Chain B, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|C Chain C, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|D Chain D, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|E Chain E, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|F Chain F, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|G Chain G, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|H Chain H, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|I Chain I, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|J Chain J, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|K Chain K, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
pdb|1I48|L Chain L, Cystathionine Gamma-Synthase In Complex With The Inhibitor
Ctcpo
Length = 445
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 35/69 (50%)
Query: 219 AQVVDELLKRRKETEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQS 278
++++D KRR E+ G+ T V E + + G E LLMAS + + + +V +
Sbjct: 93 SELIDFKEKRRASFEYGRYGNPTTVVLEEKISALEGAESTLLMASGMCASTVMLLALVPA 152
Query: 279 SGNLVNIAN 287
G++V +
Sbjct: 153 GGHIVTTTD 161
>pdb|4HXD|B Chain B, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
pdb|4HXD|D Chain D, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
Length = 174
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 57/139 (41%), Gaps = 13/139 (9%)
Query: 176 FKVTGVLADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWF 235
F+V DG C + +IA L + P R+ + +L A+V + E E
Sbjct: 28 FEVIRQPGDGNCFYHSIAE---LFFDVKTPSSFRKVKEHLQLAAEVYYD-----TEPEAV 79
Query: 236 IEG-DFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQK 294
G D Y+K + WGG E M S L+ I + VV S+ + +G
Sbjct: 80 GTGISKDEYIKVAMKDNEWGGSLEASMLSKHLQTTI-ILWVVNSTEQVTAAIKFGP---G 135
Query: 295 DKESPINVLFHGYGHYDIL 313
+ +N++ G H+D L
Sbjct: 136 RVSTALNLMHVGRTHFDAL 154
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,116,942
Number of Sequences: 62578
Number of extensions: 330042
Number of successful extensions: 641
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 634
Number of HSP's gapped (non-prelim): 12
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)