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= 047873
(464 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 30/133 (22%), Positives = 56/133 (42%), Gaps = 21/133 (15%)
Query: 282 LDGFCKEGDLESALDIRKEMIKRGIELDNVAFTALI---------------SGFCRGGKV 326
LD K+GD+ AL + E + G++L + L+ G RG +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 327 VEAERMLREMLKVGLKPDDATYTMVIDCFCKNGDTKTGFRLLKEMRSDGHLPAVETYNAL 386
++M+ + P++AT+T D + F ++K+M++ G P + +Y
Sbjct: 93 ------FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPA 146
Query: 387 MNGLCKHGQLKNA 399
+ G C+ G A
Sbjct: 147 LFGFCRKGDADKA 159
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 68/150 (45%), Gaps = 14/150 (9%)
Query: 221 LLHEMCERGLTPNDVIFTTLIDGHCKNGRIDMAGDMKE-ARKIVDEMCTNGLNPDKITYT 279
+ +M + PN+ FT R+ +A D E A +V +M G+ P +Y
Sbjct: 92 IFKQMIVDKVVPNEATFTN-------GARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYG 144
Query: 280 ILLDGFCKEGDLESALDIRKEMIKRGIELDNVAFTALIS---GFCRGGKVVEAERMLREM 336
L GFC++GD + A ++ M++ + + AL+ KV + + LR++
Sbjct: 145 PALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDL 204
Query: 337 LKVGLKPDDATYTMVIDCFCKNGDTKTGFR 366
++ K +T+ M+ + F TKTG +
Sbjct: 205 VRQVSK---STFDMIEEWFKSEVATKTGVK 231
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 28/133 (21%), Positives = 53/133 (39%), Gaps = 21/133 (15%)
Query: 282 LDGFCKEGDLESALDIRKEMIKRGIELDNVAFTALI---------------SGFCRGGKV 326
LD K+GD+ AL + E + G++L + L+ G RG +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 327 VEAERMLREMLKVGLKPDDATYTMVIDCFCKNGDTKTGFRLLKEMRSDGHLPAVETYNAL 386
++ + + P++AT+T D + F +K+ ++ G P + +Y
Sbjct: 93 ------FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPA 146
Query: 387 MNGLCKHGQLKNA 399
+ G C+ G A
Sbjct: 147 LFGFCRKGDADKA 159
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 61/141 (43%), Gaps = 14/141 (9%)
Query: 230 LTPNDVIFTTLIDGHCKNGRIDMAGDMKE-ARKIVDEMCTNGLNPDKITYTILLDGFCKE 288
+ PN+ FT R+ +A D E A V + G+ P +Y L GFC++
Sbjct: 101 VVPNEATFTN-------GARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRK 153
Query: 289 GDLESALDIRKEMIKRGIELDNVAFTALIS---GFCRGGKVVEAERMLREMLKVGLKPDD 345
GD + A ++ ++ + + AL+ KV + + LR++++ K
Sbjct: 154 GDADKAYEVDAHXVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLRDLVRQVSK--- 210
Query: 346 ATYTMVIDCFCKNGDTKTGFR 366
+T+ + + F TKTG +
Sbjct: 211 STFDXIEEWFKSEVATKTGVK 231
>pdb|2RA1|A Chain A, Crystal Structure Of The N-Terminal Part Of The Bacterial
S-Layer Protein Sbsc
Length = 412
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 47/109 (43%), Gaps = 21/109 (19%)
Query: 224 EMCERGLTPNDVIFTTLIDGHC----KNGRIDMAGDMKEARKIVDEMCTNGLNPDKITYT 279
E+ E GLT ++ TL+DG +G D AG KE +E N P IT+
Sbjct: 279 EVSESGLTATVTLYDTLVDGKTYTVVTSGLKDTAG--KEFETSTNEFTYNKPVPASITF- 335
Query: 280 ILLDGFCKEGDLESALDIRK---------EMIKRGIELDNVAFTALISG 319
F K + +SA+D+ K +IK G EL+ + L G
Sbjct: 336 ----NFNKLPE-DSAVDLTKYVTVKDAAGNVIKSGFELEFTSSEKLTQG 379
>pdb|4INA|A Chain A, Crystal Structure Of The Q7mss8_wolsu Protein From
Wolinella Succinogenes. Northeast Structural Genomics
Consortium Target Wsr35
pdb|4INA|B Chain B, Crystal Structure Of The Q7mss8_wolsu Protein From
Wolinella Succinogenes. Northeast Structural Genomics
Consortium Target Wsr35
Length = 405
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 56/140 (40%), Gaps = 28/140 (20%)
Query: 91 RIPARGCRCLIDRMMRTNLP-----------TVTLGFYLEILDYGYSPSVYVFNVLMHKL 139
I GC+ + ++++ LP +G Y++ + G + ++Y++NV H+
Sbjct: 274 EIEVNGCKVVPIQVLKALLPDPASLASRTKGKTNIGCYIKGIKEGKARTIYIYNVCDHES 333
Query: 140 CKEGKIKDAQMVFDEFGKRGLHATAVSFNTLINGHCKAKNLDEG-FRLKSVMEGSGMRPD 198
C R ++A A+S+ T + AK EG + K V + PD
Sbjct: 334 C----------------YREVNAQAISYTTGVPAXIGAKLXLEGKWSGKGVFNXEELDPD 377
Query: 199 VYTYSALINGLCKENRLDDA 218
+ GL E + +A
Sbjct: 378 PFXDELNKQGLPWEVKEXEA 397
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%)
Query: 372 RSDGHLPAVETYNALMNGLCKHGQLKNANMLLDTMLDLGVVPDDITYNILLE 423
R L ++ YNA+M G + G K +L + D G+ PD ++Y L+
Sbjct: 157 RQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 313 FTALISGFCRGGKVVEAERMLREMLKVGLKPDDATYTMVIDCFCK-NGDTKTGFRLLKEM 371
+ A++ G+ R G E +L + GL PD +Y + C + + D T R L++M
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 372 RSDG 375
+G
Sbjct: 228 SQEG 231
>pdb|3NTD|A Chain A, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C531s Mutant
pdb|3NTD|B Chain B, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C531s Mutant
Length = 565
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 8/50 (16%)
Query: 136 MHKLCKEGKIKDAQMVFDEFGKRGLHATAVSFNTLINGHCKAKNLDEGFR 185
MH+L K+ +I ++F + G RG V++ L+N +A+NL G+R
Sbjct: 518 MHELPKDKEI----IIFSQVGLRG----NVAYRQLVNNGYRARNLIGGYR 559
>pdb|1JDB|B Chain B, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|E Chain E, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|H Chain H, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|K Chain K, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1BXR|A Chain A, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|C Chain C, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|E Chain E, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|G Chain G, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1C30|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C3O|A Chain A, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|C Chain C, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|E Chain E, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|G Chain G, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1CS0|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1KEE|A Chain A, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|C Chain C, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|E Chain E, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|G Chain G, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1T36|A Chain A, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|C Chain C, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|E Chain E, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|G Chain G, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
Length = 1073
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 286 CKEGDLESALDIRKEMIKRGIELDNVAFTALISG 319
+EGD E +D+ +++K+G ELD TA++ G
Sbjct: 949 VREGDKERVVDLAAKLLKQGFELDATHGTAIVLG 982
>pdb|1A9X|A Chain A, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|C Chain C, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|E Chain E, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|G Chain G, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
Length = 1073
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 286 CKEGDLESALDIRKEMIKRGIELDNVAFTALISG 319
+EGD E +D+ +++K+G ELD TA++ G
Sbjct: 949 VREGDKERVVDLAAKLLKQGFELDATHGTAIVLG 982
>pdb|1CE8|A Chain A, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|C Chain C, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|E Chain E, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|G Chain G, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1M6V|A Chain A, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|C Chain C, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|E Chain E, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|G Chain G, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
Length = 1073
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 286 CKEGDLESALDIRKEMIKRGIELDNVAFTALISG 319
+EGD E +D+ +++K+G ELD TA++ G
Sbjct: 949 VREGDKERVVDLAAKLLKQGFELDATHGTAIVLG 982
>pdb|2QJS|A Chain A, Stenotrophomonas Maltophilia L1 Metallo-Beta-Lactamase
Asp-120 Asn Mutant
pdb|2QJS|B Chain B, Stenotrophomonas Maltophilia L1 Metallo-Beta-Lactamase
Asp-120 Asn Mutant
pdb|2QJS|C Chain C, Stenotrophomonas Maltophilia L1 Metallo-Beta-Lactamase
Asp-120 Asn Mutant
pdb|2QJS|D Chain D, Stenotrophomonas Maltophilia L1 Metallo-Beta-Lactamase
Asp-120 Asn Mutant
Length = 269
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 19/42 (45%)
Query: 390 LCKHGQLKNANMLLDTMLDLGVVPDDITYNILLEGHCKHGNP 431
L G + A+ LLD M GV P D+ +L H H P
Sbjct: 51 LLDGGMPQMASHLLDNMKARGVTPRDLRLILLSHAHANHAGP 92
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
0.324 0.140 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,024,676
Number of Sequences: 62578
Number of extensions: 600495
Number of successful extensions: 1344
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1319
Number of HSP's gapped (non-prelim): 27
length of query: 464
length of database: 14,973,337
effective HSP length: 102
effective length of query: 362
effective length of database: 8,590,381
effective search space: 3109717922
effective search space used: 3109717922
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)