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= 038890
(569 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T0Q|B Chain B, Structure Of The Toluene/o-xylene Monooxygenase
Hydroxylase
pdb|1T0R|B Chain B, Crystal Structure Of The TolueneO-Xylene Monooxygenase
Hydroxuylase From Pseudomonas Stutzeri-Azide Bound
pdb|1T0S|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
With 4- Bromophenol Bound
pdb|2RDB|B Chain B, X-Ray Crystal Structure Of TolueneO-Xylene Monooxygenase
Hydroxylase I100w Mutant
pdb|3N1X|B Chain B, X-Ray Crystal Structure Of TolueneO-Xylene Monooxygenase
Hydroxylase T201c Mutant
pdb|3N1Y|B Chain B, X-Ray Crystal Structure Of TolueneO-Xylene Monooxygenase
Hydroxylase T201g Mutant
pdb|3N1Z|B Chain B, X-Ray Crystal Structure Of TolueneO-Xylene Monooxygenase
Hydroxylase T201s Mutant
pdb|3N20|B Chain B, X-Ray Crystal Structure Of TolueneO-Xylene Monooxygenase
Hydroxylase T201v Mutant
pdb|3RN9|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sL272E DOUBLE MUTANT
pdb|3RNA|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sI100W DOUBLE MUTANT
pdb|3RNB|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sF176W DOUBLE MUTANT
pdb|3RNC|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sI100A DOUBLE MUTANT
pdb|3RNE|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sI276E DOUBLE MUTANT
pdb|3RNF|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sV271A DOUBLE MUTANT
pdb|3RNG|B Chain B, Structure Of The TolueneO-Xylene Monooxygenase Hydroxylase
T201sW167E DOUBLE MUTANT
Length = 330
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 55/134 (41%), Gaps = 9/134 (6%)
Query: 273 KITIASVLSACAYLGAIDHGKWV--HGYLRRSGLDC--DVVIGTALVDMYGKCGCVERAY 328
+I AS ++ CA DH +W+ Y R +C DV G D++ + A+
Sbjct: 144 QIAPASTITNCATYETADHLRWLTHTAYRTRELANCYPDVGFGKRERDVWEN----DPAW 199
Query: 329 GVFKEMPKKDTLAWTAMISVFALNGYGKEAF-DTFREMEAEGVRPNHVTFVGLLSACAHS 387
F+E+ +K +AW + A+N K A + + + T +GLL+
Sbjct: 200 QGFRELIEKALIAWDWGEAFTAINLVTKPAVEEALLQQLGSLAQSEGDTLLGLLAQAQKR 259
Query: 388 GLVEKGRWCFVMMR 401
RW +++
Sbjct: 260 DAERHRRWSSALVK 273
>pdb|2IND|B Chain B, Mn(Ii) Reconstituted TolueneO-Xylene Monooxygenase
Hydroxylase X-Ray Crystal Structure
Length = 323
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 55/134 (41%), Gaps = 9/134 (6%)
Query: 273 KITIASVLSACAYLGAIDHGKWV--HGYLRRSGLDC--DVVIGTALVDMYGKCGCVERAY 328
+I AS ++ CA DH +W+ Y R +C DV G D++ + A+
Sbjct: 137 QIAPASTITNCATYETADHLRWLTHTAYRTRELANCYPDVGFGKRERDVWEN----DPAW 192
Query: 329 GVFKEMPKKDTLAWTAMISVFALNGYGKEAF-DTFREMEAEGVRPNHVTFVGLLSACAHS 387
F+E+ +K +AW + A+N K A + + + T +GLL+
Sbjct: 193 QGFRELIEKALIAWDWGEAFTAINLVTKPAVEEALLQQLGSLAQSEGDTLLGLLAQAQKR 252
Query: 388 GLVEKGRWCFVMMR 401
RW +++
Sbjct: 253 DAERHRRWSSALVK 266
>pdb|1BDF|A Chain A, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|C Chain C, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|D Chain D, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
Length = 235
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 511 VPGC--SSVEVDGVVHEFSMKGSPKVVKEELVLILNGLS 547
+PGC + VE+DGV+HE+S K + E++L L GL+
Sbjct: 51 MPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLA 89
>pdb|2INC|B Chain B, Native TolueneO-Xylene Monooxygenase Hydroxylase X-Ray
Crystal Structure
Length = 322
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 55/134 (41%), Gaps = 9/134 (6%)
Query: 273 KITIASVLSACAYLGAIDHGKWV--HGYLRRSGLDC--DVVIGTALVDMYGKCGCVERAY 328
+I AS ++ CA DH +W+ Y R +C DV G D++ + A+
Sbjct: 137 QIAPASTITNCATYETADHLRWLTHTAYRTRELANCYPDVGFGKRERDVWEN----DPAW 192
Query: 329 GVFKEMPKKDTLAWTAMISVFALNGYGKEAF-DTFREMEAEGVRPNHVTFVGLLSACAHS 387
F+E+ +K +AW + A+N K A + + + T +GLL+
Sbjct: 193 QGFRELIEKALIAWDWGEAFTAINLVTKPAVEEALLQQLGSLAQSEGDTLLGLLAQAQKR 252
Query: 388 GLVEKGRWCFVMMR 401
RW +++
Sbjct: 253 DAERHRRWSSALVK 266
>pdb|3IYD|A Chain A, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|B Chain B, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3LU0|A Chain A, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|3LU0|B Chain B, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|4IGC|A Chain A, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|B Chain B, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|F Chain F, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|G Chain G, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 329
Score = 32.3 bits (72), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 511 VPGC--SSVEVDGVVHEFSMKGSPKVVKEELVLILNGLS 547
+PGC + VE+DGV+HE+S K + E++L L GL+
Sbjct: 51 MPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLA 89
>pdb|1ELW|A Chain A, Crystal Structure Of The Tpr1 Domain Of Hop In Complex
With A Hsc70 Peptide
pdb|1ELW|B Chain B, Crystal Structure Of The Tpr1 Domain Of Hop In Complex
With A Hsc70 Peptide
Length = 118
Score = 30.8 bits (68), Expect = 2.2, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 456 GNVELGEKVAQYLIDLDPLNHAFYVNLCDMYAKAG----RFDDVKKTRNLMKERG 506
GN++ + I LDP NH Y N YAK G ++D KT +L + G
Sbjct: 18 GNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWG 72
>pdb|4AV2|M Chain M, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|N Chain N, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|O Chain O, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|P Chain P, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|Q Chain Q, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|R Chain R, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|S Chain S, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|T Chain T, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|U Chain U, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|V Chain V, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|W Chain W, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|X Chain X, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis
Length = 181
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 41/105 (39%), Gaps = 6/105 (5%)
Query: 257 FQEMQSSSVEEMVKPDKITIASVLSACA-----YLGAIDHGKWVHGYLRRSGLDCDVVIG 311
F+ M++ E PD I L + Y+G + G+ V G++ G V +G
Sbjct: 65 FRRMETDKKGENA-PDTKRIKETLEKFSLENMRYVGILKSGQKVSGFIEAEGYVYTVGVG 123
Query: 312 TALVDMYGKCGCVERAYGVFKEMPKKDTLAWTAMISVFALNGYGK 356
L YG+ + V E+ + T W + + LN K
Sbjct: 124 NYLGQNYGRIESITDDSIVLNELIEDSTGNWVSRKAELLLNSSDK 168
>pdb|3P9D|A Chain A, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|I Chain I, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|AA Chain a, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|II Chain i, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|A Chain A, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|I Chain I, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|AA Chain a, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|II Chain i, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 559
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 221 VALDLFRRMKK--RNIFSWNSIITGFVQGGRAREALELFQEMQSSSVEEMVKPDKITIAS 278
+A +L +R + +N +IITGF REA+ E+ S+SV+ + K I IA
Sbjct: 104 IASELLKRANELVKNKIHPTTIITGFRVA--LREAIRFINEVLSTSVDTLGKETLINIAK 161
Query: 279 VLSACAYLGA 288
+ +GA
Sbjct: 162 TSMSSKIIGA 171
>pdb|2PSQ|A Chain A, Crystal Structure Of Unphosphorylated Unactivated Wild
Type Fgf Receptor 2 (Fgfr2) Kinase Domain
pdb|2PSQ|B Chain B, Crystal Structure Of Unphosphorylated Unactivated Wild
Type Fgf Receptor 2 (Fgfr2) Kinase Domain
Length = 370
Score = 28.9 bits (63), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 327 AYGVFKEMPKKDTLAWTAMISVFALNGYGKEAFDTFREMEAEGVRPNHVTFVGLLSACAH 386
A G+ K+ PK+ A T + + + K+ D EME + H + LL AC
Sbjct: 102 AVGIDKDKPKE---AVTVAVKMLKDDATEKDLSDLVSEMEMMKMIGKHKNIINLLGACTQ 158
Query: 387 SG 388
G
Sbjct: 159 DG 160
>pdb|2PVF|A Chain A, Crystal Structure Of Tyrosine Phosphorylated Activated Fgf
Receptor 2 (Fgfr2) Kinase Domain In Complex With Atp
Analog And Substrate Peptide
Length = 334
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 327 AYGVFKEMPKKDTLAWTAMISVFALNGYGKEAFDTFREMEAEGVRPNHVTFVGLLSACAH 386
A G+ K+ PK+ A T + + + K+ D EME + H + LL AC
Sbjct: 56 AVGIDKDKPKE---AVTVAVKMLKDDATEKDLSDLVSEMEMMKMIGKHKNIINLLGACTQ 112
Query: 387 SG 388
G
Sbjct: 113 DG 114
>pdb|3CLY|A Chain A, Crystal Structure Of Fgf Receptor 2 (Fgfr2) Kinase Domains
Trapped In Trans-Phosphorylation Reaction
Length = 334
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 327 AYGVFKEMPKKDTLAWTAMISVFALNGYGKEAFDTFREMEAEGVRPNHVTFVGLLSACAH 386
A G+ K+ PK+ A T + + + K+ D EME + H + LL AC
Sbjct: 56 AVGIDKDKPKE---AVTVAVKMLKDDATEKDLSDLVSEMEMMKMIGKHKNIINLLGACTQ 112
Query: 387 SG 388
G
Sbjct: 113 DG 114
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
0.323 0.137 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,255,315
Number of Sequences: 62578
Number of extensions: 654517
Number of successful extensions: 1804
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1799
Number of HSP's gapped (non-prelim): 20
length of query: 569
length of database: 14,973,337
effective HSP length: 104
effective length of query: 465
effective length of database: 8,465,225
effective search space: 3936329625
effective search space used: 3936329625
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)