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= 021093
(317 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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 177 KVTADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWFIEGD 236
++ DG CLFRA+A ++V ++ E+ +R +D L+K ++ D
Sbjct: 50 QMKEDGACLFRAVA--------DQVYGDQDMHEV---VRKHCMDYLMKNADYFSNYVTED 98
Query: 237 FDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDKESP 296
F TY+ ++ G E+ + + +P+ V+ + + I + +Q + E P
Sbjct: 99 FTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDE-P 157
Query: 297 INVLFHGYGHYD 308
I V +H HY+
Sbjct: 158 IRVSYHRNIHYN 169
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 54/128 (42%), Gaps = 12/128 (9%)
Query: 181 DGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWFIEGDFDTY 240
DG CLFRA+A ++V ++ E+ +R D L K ++ DF TY
Sbjct: 54 DGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADYFSNYVTEDFTTY 102
Query: 241 VKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDKESPINVL 300
+ ++ G E + +P+ V+ + + I + +Q + E PI V
Sbjct: 103 INRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDE-PIRVS 161
Query: 301 FHGYGHYD 308
+H HY+
Sbjct: 162 YHRNIHYN 169
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 55/128 (42%), Gaps = 17/128 (13%)
Query: 181 DGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWFIEGDFDTY 240
DG CLFRA+A ++V ++ E+ +R D L K ++ DF TY
Sbjct: 67 DGACLFRAVA--------DQVYGDQDXHEV---VRKHCXDYLXKNADYFSNYVTEDFTTY 115
Query: 241 VKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDKESPINVL 300
+ ++ G E + +P+ V+ Q S +N + ++++ PI V
Sbjct: 116 INRKRKNNCHGNHIEXQAXAEXYNRPVEVY---QYSTEPINTFH---GIHQNEDEPIRVS 169
Query: 301 FHGYGHYD 308
+H HY+
Sbjct: 170 YHRNIHYN 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 = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 65/134 (48%), Gaps = 22/134 (16%)
Query: 178 VTADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWFIEGDF 237
V D CLF AIA+G + ++ R+L + + +V++ +K + ++
Sbjct: 25 VLDDNSCLFHAIAYG--------IFKQDSVRDLREXVSKEVLNNPVKF---NDAILDKPN 73
Query: 238 DTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDK-ESP 296
Y + I + WGG E+ + S L +A+++V + + E++ +DK ++
Sbjct: 74 KDYAQWILKXESWGGAIEIGIISDAL--AVAIYVVDIDAVKI-------EKFNEDKFDNY 124
Query: 297 INVLFHGYGHYDIL 310
I +LF+G HYD L
Sbjct: 125 ILILFNGI-HYDSL 137
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 66/142 (46%), Gaps = 25/142 (17%)
Query: 178 VTADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKR-RKETEWFIEGD 236
V D CLF AIA+G +Q + D LR V E+L K + ++
Sbjct: 25 VLDDNSCLFHAIAYGIF-----------KQDSVRD-LREMVSKEVLNNPVKFNDAILDKP 72
Query: 237 FDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDK-ES 295
Y + I + WGG E+ + S L +A+++V + + E++ +DK ++
Sbjct: 73 NKDYAQWILKMESWGGAIEIGIISDAL--AVAIYVVDIDAVKI-------EKFNEDKFDN 123
Query: 296 PINVLFHGYGHYDILETFSEQK 317
I +LF+G HYD L T +E K
Sbjct: 124 YILILFNGI-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 = 0.70, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 35/69 (50%)
Query: 216 AQVVDELLKRRKETEWFIEGDFDTYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQS 275
++++D KRR E+ G+ T V E + + G E LLMAS + + + +V +
Sbjct: 93 SELIDFKEKRRASFEYGRYGNPTTVVLEEKISALEGAESTLLMASGMCASTVMLLALVPA 152
Query: 276 SGNLVNIAN 284
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 = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 54/132 (40%), Gaps = 13/132 (9%)
Query: 180 ADGRCLFRAIAHGACLRSGEEVPDEERQRELADELRAQVVDELLKRRKETEWFIEG-DFD 238
DG C + +IA L + P R+ + +L A+V + E E G D
Sbjct: 35 GDGNCFYHSIAE---LFFDVKTPSSFRKVKEHLQLAAEVYYD-----TEPEAVGTGISKD 86
Query: 239 TYVKEIQQPYVWGGEPELLMASHVLKKPIAVFMVVQSSGNLVNIANYGEEYQKDKESPIN 298
Y+K + WGG E M S L+ I + VV S+ + +G + +N
Sbjct: 87 EYIKVAMKDNEWGGSLEASMLSKHLQTTI-ILWVVNSTEQVTAAIKFGP---GRVSTALN 142
Query: 299 VLFHGYGHYDIL 310
++ G H+D L
Sbjct: 143 LMHVGRTHFDAL 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 0.135 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,015,728
Number of Sequences: 62578
Number of extensions: 325149
Number of successful extensions: 613
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 607
Number of HSP's gapped (non-prelim): 10
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
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)