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= 020298
(328 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B08|B Chain B, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|E Chain E, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|H Chain H, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|K Chain K, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|B Chain B, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|E Chain E, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
Length = 64
Score = 35.8 bits (81), Expect = 0.033, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 272 PIIWRCPACTFDNSGWLSICEMCGTSR 298
P+ W+CP CTF N CEMC +R
Sbjct: 6 PVGWQCPGCTFINKPTRPGCEMCCRAR 32
>pdb|2CRC|A Chain A, Solution Structure Of The Zf-Ranbp Domain Of The Protein
Hbv Associated Factor
Length = 52
Score = 35.0 bits (79), Expect = 0.053, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 272 PIIWRCPACTFDNSGWLSICEMCGTSR 298
P+ W+CP CTF N CEMC +R
Sbjct: 8 PVGWQCPGCTFINKPTRPGCEMCCRAR 34
>pdb|1W7P|D Chain D, The Crystal Structure Of Endosomal Complex Escrt-Ii
(Vps22VPS25VPS36)
Length = 566
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 277 CPACTFDNSGWLSICEMCG 295
CPACTF N + CE+CG
Sbjct: 183 CPACTFANHPQIGNCEICG 201
>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant
Length = 180
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 5 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFA---RYFTHALMHFSLMHI 61
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + +V+ L I+ LL+ + ++ + +
Sbjct: 62 LFNLLWWWYLGGAVEKRLGSGKL--IVITL------ISALLSGYV------QQKFSGPWF 107
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 108 GGLSGVVYALMGYVWLRGE 126
>pdb|1NJ3|A Chain A, Structure And Ubiquitin Interactions Of The Conserved Nzf
Domain Of Npl4
pdb|1Q5W|A Chain A, Ubiquitin Recognition By Npl4 Zinc-Fingers
Length = 31
Score = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 274 IWRCPACTFDNSGWLSICEMCGTSRS 299
+W C CTF N CEMC R+
Sbjct: 6 MWACQHCTFMNQPGTGHCEMCSLPRT 31
>pdb|2WX0|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX0|G Chain G, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX1|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked
Tri-Ubiquitin, P212121
Length = 31
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 12/24 (50%)
Query: 275 WRCPACTFDNSGWLSICEMCGTSR 298
W C ACTF N L CE C R
Sbjct: 6 WNCTACTFLNHPALIRCEQCEMPR 29
>pdb|2WWZ|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P212121
Length = 32
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 12/24 (50%)
Query: 275 WRCPACTFDNSGWLSICEMCGTSR 298
W C ACTF N L CE C R
Sbjct: 7 WNCTACTFLNHPALIRCEQCEMPR 30
>pdb|3B45|A Chain A, Crystal Structure Of Glpg At 1.9a Resolution
Length = 180
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 5 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 61
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + + + I+ LL+ + ++ + +
Sbjct: 62 LFNLLWWWYLGGAVEKRLGSGKLIVITL--------ISALLSGYV------QQKFSGPWF 107
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 108 GGLSGVVYALMGYVWLRGE 126
>pdb|2IRV|A Chain A, Crystal Structure Of Glpg, A Rhomboid Intramembrane Serine
Protease
pdb|2IRV|B Chain B, Crystal Structure Of Glpg, A Rhomboid Intramembrane Serine
Protease
Length = 182
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 4 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 60
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + + + I+ LL+ + ++ + +
Sbjct: 61 LFNLLWWWYLGGAVEKRLGSGKLIVITL--------ISALLSGYV------QQKFSGPWF 106
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 107 GGLSGVVYALMGYVWLRGE 125
>pdb|2XOW|A Chain A, Structure Of Glpg In Complex With A Mechanism-Based
Isocoumarin Inhibitor
pdb|3TXT|A Chain A, Crystal Structure Of Glpg In Complex With Inhibitor Dfp
pdb|3ZEB|A Chain A, A Complex Of Glpg With Isocoumarin Inhibitor Covalently
Bonded To Serine 201 And Histidine 150
Length = 179
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 4 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 60
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + + + I+ LL+ + ++ + +
Sbjct: 61 LFNLLWWWYLGGAVEKRLGSGKLIVITL--------ISALLSGYV------QQKFSGPWF 106
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 107 GGLSGVVYALMGYVWLRGE 125
>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg, Native
Enzyme
Length = 181
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 5 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 61
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + + + I+ LL+ + ++ + +
Sbjct: 62 LFNLLWWWYLGGAVEKRLGSGKLIVITL--------ISALLSGYV------QQKFSGPWF 107
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 108 GGLSGVVYALMGYVWLRGE 126
>pdb|3A9J|C Chain C, Crystal Structure Of The Mouse Tab2-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
Length = 34
Score = 29.3 bits (64), Expect = 3.5, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 12/24 (50%)
Query: 275 WRCPACTFDNSGWLSICEMCGTSR 298
W C ACTF N L CE C R
Sbjct: 9 WNCTACTFLNHPALIRCEQCEMPR 32
>pdb|2IC8|A Chain A, Crystal Structure Of Glpg
pdb|2NRF|A Chain A, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
Protease
pdb|2NRF|B Chain B, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
Protease
pdb|3UBB|A Chain A, The Crystal Structure Of Glpg In Complex With A
Phosphonofluoridate Inhibitor
Length = 182
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 5 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 61
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + +V+ L I+ LL+ + ++ + +
Sbjct: 62 LFNLLWWWYLGGAVEKRLGSGKL--IVITL------ISALLSGYV------QQKFSGPWF 107
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 108 GGLSGVVYALMGYVWLRGE 126
>pdb|3A9K|C Chain C, Crystal Structure Of The Mouse Tab3-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
Length = 34
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 275 WRCPACTFDNSGWLSICEMCGTSR 298
W C +CTF N L+ CE C R
Sbjct: 9 WNCDSCTFLNHPALNRCEQCEMPR 32
>pdb|2O7L|A Chain A, The Open-Cap Conformation Of Glpg
Length = 180
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 3 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 59
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + +V+ L I+ LL+ + ++ + +
Sbjct: 60 LFNLLWWWYLGGAVEKRLGSGKL--IVITL------ISALLSGYV------QQKFSGPWF 105
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G SGV++A+ + R E
Sbjct: 106 GGLSGVVYALMGYVWLRGE 124
>pdb|2XTU|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg Active Site
Mutant, S201t In Trigonal Crystal Form
Length = 181
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 27/139 (19%), Positives = 60/139 (43%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 5 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 61
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + + + I+ LL+ + ++ + +
Sbjct: 62 LFNLLWWWYLGGAVEKRLGSGKLIVITL--------ISALLSGYV------QQKFSGPWF 107
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G +GV++A+ + R E
Sbjct: 108 GGLTGVVYALMGYVWLRGE 126
>pdb|2XTV|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg, Active Site
Mutant, S201t, Orthorhombic Crystal Form
Length = 180
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 29/139 (20%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 34 PVTAALLATNTLIYLRPAFLDSLVPSIHEVW-FNPHLILKYKDLKRFFLSPFYHASESHL 92
PVT ++ ++++ L + W F+P L ++ R+F H S H+
Sbjct: 3 PVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFW---RYFTHALMHFSLMHI 59
Query: 93 FYNMMSLLWKGIQLETSMGSNEFAAMVVALLGMSQGITLLLAKSLVLFFDYERAYYSEYA 152
+N++ + G +E +GS + +V+ L I+ LL+ + ++ + +
Sbjct: 60 LFNLLWWWYLGGAVEKRLGSGKL--IVITL------ISALLSGYV------QQKFSGPWF 105
Query: 153 VGFSGVLFAMKVVLNSRSE 171
G +GV++A+ + R E
Sbjct: 106 GGLTGVVYALMGYVWLRGE 124
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
0.326 0.140 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,073,928
Number of Sequences: 62578
Number of extensions: 340516
Number of successful extensions: 673
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 663
Number of HSP's gapped (non-prelim): 19
length of query: 328
length of database: 14,973,337
effective HSP length: 99
effective length of query: 229
effective length of database: 8,778,115
effective search space: 2010188335
effective search space used: 2010188335
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)