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= 020231
(329 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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 72/136 (52%), Gaps = 4/136 (2%)
Query: 185 GFVEHKVQGDGNCQFRALSDQLYHTPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLK 244
GF+ +++ DG C FRA++DQ+Y + H+ VR+ + L + + + YV +++ Y+
Sbjct: 45 GFIIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTYIN 104
Query: 245 KMSMSGEWGDHVTLQAAADLFHVKIVVITSFKDTCYIEILPNVEKIKR----AICLSFWA 300
+ + G+H+ +QA A++++ + V T +E + I + I +S+
Sbjct: 105 RKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSYHR 164
Query: 301 EVHYNSIFSQDDRPLG 316
+HYNS+ + + +G
Sbjct: 165 NIHYNSVVNPNKATIG 180
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 68/136 (50%), Gaps = 4/136 (2%)
Query: 185 GFVEHKVQGDGNCQFRALSDQLYHTPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLK 244
GF+ + + DG C FRA++DQ+Y + H+ VR+ L + + + YV +++ Y+
Sbjct: 45 GFIIKQXKEDGACLFRAVADQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTYIN 104
Query: 245 KMSMSGEWGDHVTLQAAADLFHVKIVVITSFKDTCYIEILPNVEKIKR----AICLSFWA 300
+ + G+H+ QA A+ ++ + V T +E + I + I +S+
Sbjct: 105 RKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSYHR 164
Query: 301 EVHYNSIFSQDDRPLG 316
+HYNS+ + + +G
Sbjct: 165 NIHYNSVVNPNKATIG 180
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 64/132 (48%), Gaps = 15/132 (11%)
Query: 185 GFVEHKVQGDGNCQFRALSDQLYHTPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLK 244
GF+ + + DG C FRA++DQ+Y + H+ VR+ L + + + YV +++ Y+
Sbjct: 58 GFIIKQXKEDGACLFRAVADQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTYIN 117
Query: 245 KMSMSGEWGDHVTLQAAADLFHVKIVV-------ITSFKDTCYIEILPNVEKIKRAICLS 297
+ + G+H+ QA A+ ++ + V I +F E P I +S
Sbjct: 118 RKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTEPINTFHGIHQNEDEP--------IRVS 169
Query: 298 FWAEVHYNSIFS 309
+ +HYNS+ +
Sbjct: 170 YHRNIHYNSVVN 181
>pdb|2F9C|A Chain A, Crystal Structure Of Ydck From Salmonella Cholerae. Nesg
Target Scr6
pdb|2F9C|B Chain B, Crystal Structure Of Ydck From Salmonella Cholerae. Nesg
Target Scr6
Length = 334
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 42/72 (58%), Gaps = 11/72 (15%)
Query: 131 SLEITDECLLDDEVGKRLNQ--MVAIRHVPRINGEIPSV-DEATSDHERLLNRLQLYG-- 185
S + +EC + + + LNQ ++AI+ + + +I + D AT +H R+++++QLYG
Sbjct: 117 SSSVREECAIYGD-ARVLNQSEILAIQGLTHEHAQILQIYDRATVNHSRIVHQVQLYGNA 175
Query: 186 -----FVEHKVQ 192
F+EH+ +
Sbjct: 176 TITHAFIEHRAE 187
>pdb|2PIG|A Chain A, Crystal Structure Of Ydck From Salmonella Cholerae At 2.38
A Resolution. Northeast Structural Genomics Target Scr6
pdb|2PIG|B Chain B, Crystal Structure Of Ydck From Salmonella Cholerae At 2.38
A Resolution. Northeast Structural Genomics Target Scr6
Length = 334
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 42/72 (58%), Gaps = 11/72 (15%)
Query: 131 SLEITDECLLDDEVGKRLNQ--MVAIRHVPRINGEIPSV-DEATSDHERLLNRLQLYG-- 185
S + +EC + + + LNQ ++AI+ + + +I + D AT +H R+++++QLYG
Sbjct: 117 SSSVREECAIYGD-ARVLNQSEILAIQGLTHEHAQILQIYDRATVNHSRIVHQVQLYGNA 175
Query: 186 -----FVEHKVQ 192
F+EH+ +
Sbjct: 176 TITHAFIEHRAE 187
>pdb|3QIJ|A Chain A, Primitive-Monoclinic Crystal Structure Of The Ferm Domain
Of Protein 4.1r
pdb|3QIJ|B Chain B, Primitive-Monoclinic Crystal Structure Of The Ferm Domain
Of Protein 4.1r
Length = 296
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 11/83 (13%)
Query: 209 TPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLKKMSMSGEWGDHVTLQAAADLFHVK 268
P K + ++++ KS+ M +E+ E KK+SM G V L A DL V
Sbjct: 164 APNQTKELEEKVMELHKSYRSMTPAQADLEFLENAKKLSMYG-----VDLHKAKDLEGVD 218
Query: 269 IVV------ITSFKDTCYIEILP 285
I++ + +KD I P
Sbjct: 219 IILGVCSSGLLVYKDKLRINRFP 241
>pdb|1GG3|A Chain A, Crystal Structure Of The Protein 4.1r Membrane Binding
Domain
pdb|1GG3|B Chain B, Crystal Structure Of The Protein 4.1r Membrane Binding
Domain
pdb|1GG3|C Chain C, Crystal Structure Of The Protein 4.1r Membrane Binding
Domain
Length = 279
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 11/83 (13%)
Query: 209 TPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLKKMSMSGEWGDHVTLQAAADLFHVK 268
P K + ++++ KS+ M +E+ E KK+SM G V L A DL V
Sbjct: 147 APNQTKELEEKVMELHKSYRSMTPAQADLEFLENAKKLSMYG-----VDLHKAKDLEGVD 201
Query: 269 IVV------ITSFKDTCYIEILP 285
I++ + +KD I P
Sbjct: 202 IILGVCSSGLLVYKDKLRINRFP 224
>pdb|3BIN|A Chain A, Structure Of The Dal-1 And Tslc1 (372-383) Complex
Length = 283
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 209 TPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLKKMSMSGEWGDHVTLQAAADLFHVK 268
P H K + +++ KSH M M + E KK+SM G V L A D V+
Sbjct: 149 APNHTKELEDKVIELHKSHRGMTPAEAEMHFLENAKKLSMYG-----VDLHHAKDSEGVE 203
Query: 269 IVV 271
I++
Sbjct: 204 IML 206
>pdb|2HE7|A Chain A, Ferm Domain Of Epb41l3 (Dal-1)
Length = 283
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 209 TPEHHKSVRQQIVTQLKSHPEMYEGYVPMEYSEYLKKMSMSGEWGDHVTLQAAADLFHVK 268
P H K + +++ KSH M M + E KK+SM G V L A D V+
Sbjct: 149 APNHTKELEDKVIELHKSHRGMTPAEAEMHFLENAKKLSMYG-----VDLHHAKDSEGVE 203
Query: 269 IVV 271
I++
Sbjct: 204 IML 206
>pdb|3PRP|A Chain A, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRP|C Chain C, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
Length = 178
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 193 GDGNCQFRALS-----DQLYHTPEHHKSVRQQIVTQL-KSHPEMYEGYVPMEYSEYLKKM 246
GDGNC + +++ ++ H+ + K + + + + PE V + +YLK+M
Sbjct: 36 GDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEAR--LVGLSLEDYLKRM 93
Query: 247 SMSGEWGDHVTLQAAADLFHVKIVVIT 273
EWG + A + I++ T
Sbjct: 94 LSDNEWGSTLEASMLAKEMGITIIIWT 120
>pdb|3PSE|A Chain A, Structure Of A Viral Otu Domain Protease Bound To
Interferon- Stimulated Gene 15 (Isg15)
Length = 171
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 193 GDGNCQFRALSD-QLYHTPEH--HKSVRQQIVTQLKSHPEMYEG-YVPMEYSEYLKKMSM 248
GDGNC + ++++ + + +H H R K + E E V + +YLK+M
Sbjct: 38 GDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLS 97
Query: 249 SGEWGDHVTLQAAADLFHVKIVVIT 273
EWG + A + I++ T
Sbjct: 98 DNEWGSTLEASMLAKEMGITIIIWT 122
>pdb|3ZNH|A Chain A, Crimean Congo Hemorrhagic Fever Virus Otu Domain In
Complex With Ubiquitin-propargyl
Length = 183
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 193 GDGNCQFRALSD-QLYHTPEH--HKSVRQQIVTQLKSHPEMYEG-YVPMEYSEYLKKMSM 248
GDGNC + ++++ + + +H H R K + E E V + +YLK+M
Sbjct: 36 GDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLS 95
Query: 249 SGEWGDHVTLQAAADLFHVKIVVIT 273
EWG + A + I++ T
Sbjct: 96 DNEWGSTLEASMLAKEMGITIIIWT 120
>pdb|3PHW|A Chain A, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|C Chain C, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|E Chain E, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|G Chain G, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHX|A Chain A, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Isg15
Length = 185
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 193 GDGNCQFRALSD-QLYHTPEH--HKSVRQQIVTQLKSHPEMYEG-YVPMEYSEYLKKMSM 248
GDGNC + ++++ + + +H H R K + E E V + +YLK+M
Sbjct: 38 GDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLS 97
Query: 249 SGEWGDHVTLQAAADLFHVKIVVIT 273
EWG + A + I++ T
Sbjct: 98 DNEWGSTLEASMLAKEMGITIIIWT 122
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
0.318 0.134 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,737,545
Number of Sequences: 62578
Number of extensions: 372525
Number of successful extensions: 871
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 864
Number of HSP's gapped (non-prelim): 15
length of query: 329
length of database: 14,973,337
effective HSP length: 99
effective length of query: 230
effective length of database: 8,778,115
effective search space: 2018966450
effective search space used: 2018966450
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)