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= 038031
(729 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 99/403 (24%), Positives = 157/403 (38%), Gaps = 113/403 (28%)
Query: 376 SSLSLCSLREIE------IYNCSSLVSFPEVALPSKLKKIQIRHCD--ALKSLPE--AWM 425
++L L SL E+ + +C+SL PE LP LK + + + + AL LP ++
Sbjct: 79 NNLGLSSLPELPPHLESLVASCNSLTELPE--LPQSLKSLLVDNNNLKALSDLPPLLEYL 136
Query: 426 CDTNSSLEILNIQYCCSLRYIVEV---------QLPPSLKQLTIWRCDNIRTLTVEEGIQ 476
+N+ LE L S I++V LPPSL+ +
Sbjct: 137 GVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQ------------ 184
Query: 477 XXXXXXXXXXLLEKL-EIWDCPSLTCIFSKN-------ELPATLESLEVGNLPPSLKSLS 528
LE+L E+ + P LT I++ N +LP +LES+ GN +
Sbjct: 185 -----------LEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGN--------N 225
Query: 529 RLEALPKGLHNLSCLQELTIIGGALPSLEEEDGLPTNLQSLDIRGNM-----EICKSLIE 583
LE LP+ L NL L + L +L + LP +L++L++R N E+ +SL
Sbjct: 226 ILEELPE-LQNLPFLTTIYADNNLLKTLPD---LPPSLEALNVRDNYLTDLPELPQSLTF 281
Query: 584 RGRGFHRFSSLRHLTI------GGCDDDTVMVSFPLEDKRLGXXXXXXXXXXXXXXXRFP 637
+ FS L L ++ + P + L P
Sbjct: 282 LDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALP----P 337
Query: 638 NLERLSSSIVDL-------QNLTELHLWDCPKLKYFPE-----------------KGLPS 673
LERL +S L QNL +LH+ P L+ FP+ LP
Sbjct: 338 RLERLIASFNHLAEVPELPQNLKQLHVEYNP-LREFPDIPESVEDLRMNSHLAEVPELPQ 396
Query: 674 SLLQLWISGCPLIEEKCRKDGGQYWDLLTHIPCVKIDWERLFD 716
+L QL + PL E + D+ + ++++ ER+ D
Sbjct: 397 NLKQLHVETNPLRE---------FPDIPESVEDLRMNSERVVD 430
>pdb|2A5Z|A Chain A, Crystal Structure Of Protein Of Unknown Function So2946
From Shewanella Oneidensis Mr-1
pdb|2A5Z|B Chain B, Crystal Structure Of Protein Of Unknown Function So2946
From Shewanella Oneidensis Mr-1
pdb|2A5Z|C Chain C, Crystal Structure Of Protein Of Unknown Function So2946
From Shewanella Oneidensis Mr-1
Length = 262
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 36/83 (43%), Gaps = 1/83 (1%)
Query: 221 TLPEHLPALQMLAIYKCEKLSISITSLPALCKLVIGGCKKVVLRSATDHLGLQNSVVCRD 280
TL + A Y SI +TS + L G + S +H G+Q +V
Sbjct: 39 TLTTSIATSDFYASYDFXXHSIGLTSANNISLLSTGNISLQNILSEGNHFGVQ-PIVSST 97
Query: 281 TSNQVFLAGPLKPRIPKLEELEI 303
T+N FLAG L PK ELE+
Sbjct: 98 TANASFLAGXLXAIFPKESELEV 120
>pdb|1M6V|B Chain B, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|D Chain D, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|F Chain F, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|H Chain H, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
Length = 382
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 134 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPQAKKEDELPF 192
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 193 HVVAYDFGAKRNILRMLVDRG 213
>pdb|1JDB|C Chain C, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|F Chain F, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|I Chain I, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|L Chain L, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1BXR|B Chain B, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|D Chain D, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|F Chain F, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|H Chain H, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1CE8|B Chain B, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|D Chain D, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|F Chain F, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|H Chain H, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
Length = 382
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 134 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPQAKKEDELPF 192
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 193 HVVAYDFGAKRNILRMLVDRG 213
>pdb|1T36|B Chain B, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|D Chain D, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|F Chain F, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|H Chain H, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
Length = 382
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 134 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPEAKKEDELPF 192
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 193 HVVAYDFGAKRNILRMLVDRG 213
>pdb|1A9X|B Chain B, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|D Chain D, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|F Chain F, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|H Chain H, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
Length = 379
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 133 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPQAKKEDELPF 191
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 192 HVVAYDFGAKRNILRMLVDRG 212
>pdb|1C30|B Chain B, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|D Chain D, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|F Chain F, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|H Chain H, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C3O|B Chain B, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|D Chain D, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|F Chain F, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|H Chain H, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
Length = 382
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 134 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPEAKKEDELPF 192
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 193 HVVAYDFGAKRNILRMLVDRG 213
>pdb|1CS0|B Chain B, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|D Chain D, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|F Chain F, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|H Chain H, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1KEE|B Chain B, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|D Chain D, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|F Chain F, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|H Chain H, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
Length = 382
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 13/81 (16%)
Query: 517 VGNLPPSLKSLSRLEALPKGLHNLSCLQELTI------------IGGALPSLEEEDGLPT 564
G+ P + +L + A P GL+ + +E+T + G LP ++ED LP
Sbjct: 134 AGDNPDAALALEKARAFP-GLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPEAKKEDELPF 192
Query: 565 NLQSLDIRGNMEICKSLIERG 585
++ + D I + L++RG
Sbjct: 193 HVVAYDFGAKRNILRMLVDRG 213
>pdb|1VHB|A Chain A, Bacterial Dimeric Hemoglobin From Vitreoscilla Stercoraria
pdb|1VHB|B Chain B, Bacterial Dimeric Hemoglobin From Vitreoscilla Stercoraria
pdb|2VHB|A Chain A, Azide Adduct Of The Bacterial Hemoglobin From Vitreoscilla
Stercoraria
pdb|2VHB|B Chain B, Azide Adduct Of The Bacterial Hemoglobin From Vitreoscilla
Stercoraria
pdb|3VHB|A Chain A, Imidazole Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|3VHB|B Chain B, Imidazole Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|4VHB|A Chain A, Thiocyanate Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|4VHB|B Chain B, Thiocyanate Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp
Length = 146
Score = 32.3 bits (72), Expect = 0.85, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 196 GSSQGVERFPKLRELQILRCSKLQGTLPEHLPALQMLAIYKCEKLSISITSLPALCKLVI 255
G + +E+ PK + +L ++ LP LPA++ +A+ C+ ++ P + + ++
Sbjct: 46 GRQESLEQ-PKALAMTVLAAAQNIENLPAILPAVKKIAVKHCQA-GVAAAHYPIVGQELL 103
Query: 256 GGCKKVVLRSATDHL 270
G K+V+ +ATD +
Sbjct: 104 GAIKEVLGDAATDDI 118
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 520 LPPSLKSL----SRLEALPKGLHNLSCLQELTIIGGALPSLEEEDGLPTNLQSL 569
LPP +K L +R+ ++PK + +L LQEL + L S+ DG+ L SL
Sbjct: 448 LPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSV--PDGVFDRLTSL 499
>pdb|2OZ4|A Chain A, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 265
Score = 29.3 bits (64), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 659 DCPKLKYFPEKGLPSSLLQLWISGCPLIEEKCRKDG 694
DCP +PE + + Q W G PL E KC KDG
Sbjct: 190 DCPGNWTWPENSQQTPMCQAW--GNPLPELKCLKDG 223
>pdb|1P53|A Chain A, The Crystal Structure Of Icam-1 D3-D5 Fragment
pdb|1P53|B Chain B, The Crystal Structure Of Icam-1 D3-D5 Fragment
Length = 266
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 659 DCPKLKYFPEKGLPSSLLQLWISGCPLIEEKCRKDG 694
DCP +PE + + Q W G PL E KC KDG
Sbjct: 191 DCPGNWTWPENSQQTPMCQAW--GNPLPELKCLKDG 224
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
0.319 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,017,407
Number of Sequences: 62578
Number of extensions: 846667
Number of successful extensions: 1982
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1976
Number of HSP's gapped (non-prelim): 23
length of query: 729
length of database: 14,973,337
effective HSP length: 106
effective length of query: 623
effective length of database: 8,340,069
effective search space: 5195862987
effective search space used: 5195862987
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: 55 (25.8 bits)