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= 016038
(396 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LHO|A Chain A, Crystal Structure Of Putative Hydrolase (Yp_751971.1) From
Shewanella Frigidimarina Ncimb 400 At 1.80 A Resolution
Length = 267
Score = 134 bits (336), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 99/279 (35%), Positives = 139/279 (49%), Gaps = 34/279 (12%)
Query: 112 YLNRNPTAKAVLELVQSSGNNQICYDHIAFRTFGVNGHGIDSIASFFMDYGYTKQDELRF 171
Y+ P+A + +L+ I DHIA RTF + + +A F GY + +F
Sbjct: 17 YIKXTPSAAKIHQLLGHGA--PIINDHIALRTFNIAKVNLSVLAKHFTSIGYVDSGDYKF 74
Query: 172 PAKKLKAFWFSPPSFHYPDGGSGVNGPLPRVFISELLVDQMSPQIQEIIRKYTETSGSGK 231
KKL A F +PD P+VFISELLV++ SP++Q+ I + +
Sbjct: 75 EQKKLIA-----KHFEHPDPKQ------PKVFISELLVEEFSPEVQKSIHGLID-----Q 118
Query: 232 KHAALASALGSLTWGKPL---YSEFQQLARESEYAAWTLVNGYAVNHVTISIHHLKSQLN 288
A +A + G+ + +Q L ESEYAAW GY NH T+SI+ L +
Sbjct: 119 VDIAATTADNFIYSGRHWDVDKATYQALLAESEYAAWVAALGYRANHFTVSINDL-PEFE 177
Query: 289 NIKSLNQFIEDNGFRLNSEGGVLKVSPDGLLLQSSTVADSFPFCFSDGVTESVPCSYIEF 348
I+ +NQ ++ GF LNS GG +K SP+ LL QSST AD F+DG E +P + EF
Sbjct: 178 RIEDVNQALKQAGFVLNSSGGEVKGSPEVLLEQSSTXADKVVVNFTDGDVE-IPSCFYEF 236
Query: 349 AERLVLPQYKNLPEAEVKEFHRRDGFEVGNADKIFESTS 387
A R P A + + GF +ADKIFEST+
Sbjct: 237 ARR--------YPXANGQLY---TGFVAASADKIFESTN 264
>pdb|3IUZ|A Chain A, Crystal Structure Of Putative Glyoxalase Superfamily
Protein (Yp_299723.1) From Ralstonia Eutropha Jmp134 At
1.90 A Resolution
Length = 340
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 72/311 (23%), Positives = 114/311 (36%), Gaps = 60/311 (19%)
Query: 110 AVYLNRNPTAKAVLELVQSSGNNQICYDHIAFRTF-----GVNGHGIDSIASFFMDYGYT 164
A L+R PT +A + V ++G + +DH A RT G G + GY
Sbjct: 55 AGILDRVPTGRAYTDDVAATGG-XVVFDHGALRTVXWRDNGALPEGEAAFTRILRPLGYR 113
Query: 165 KQDELRFPAKKLKAFWFSPPSFHYPDGGSGVNGPLPRVFISEL----------------- 207
+P ++ S P+G + + F+SE
Sbjct: 114 LNGN--YPLDRISXTGRSYAHADAPEG-------IAQFFVSEFHPERFSDAFREAVGRVT 164
Query: 208 --LVDQMSPQIQEII----RKYTETSGSGKKHAALASALGSLTWGKPLYSEFQQLARESE 261
D ++P+ Q ++ R T G + L G P ++++ L RES
Sbjct: 165 GNSADPLTPRAQTLLWQLDRDGVLTVADGAELIGLLVPCFERQHGVPRLADYETLLRESA 224
Query: 262 YAAWTLVNGYAVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLNSEGGVLKVSPDGLLLQ 321
AW G A NH T + + +L + D ++VS G + Q
Sbjct: 225 EXAWIATEGNAFNHATDRVDDVFGLSEQQXALGRPXXDX----------VEVSGSGRVXQ 274
Query: 322 SSTVADSFPFCF----SDGVTESVPCSYIEFAERLVLPQYKNLPEAEVKEFHRRD-GFEV 376
++ AD+ F + V VP S+ EF R ++ + P A R D GF+
Sbjct: 275 TAFRADTVRRQFIGAQGETVERDVPGSFYEFITR---DRFADAPAAS----PRVDLGFDA 327
Query: 377 GNADKIFESTS 387
GNA IF T+
Sbjct: 328 GNAQGIFXXTA 338
>pdb|2X8X|X Chain X, Structure Of The N-Terminal Domain Of Omp85 From The
Thermophilic Cyanobacterium Thermosynechococcus
Elongatus
Length = 235
Score = 35.4 bits (80), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 32/174 (18%), Positives = 73/174 (41%), Gaps = 41/174 (23%)
Query: 200 PRVFISELLVDQMSPQIQEIIRKYTETS-GSGKKHAALASALGSLTWGKPLYSEFQQLAR 258
P+V I+E++V+ +P++++++ + T GS L ++ + +++ + R
Sbjct: 3 PKVLIAEVVVEGATPELEQLVYQVISTRPGSTTTRTQLQQDTNAI-FATGFFADVNAVPR 61
Query: 259 ES-------------------EYAAWTLVNGYAVNHV-------TISIHHLKSQLNNIKS 292
++ + A ++ VN + T+++ L++ I+
Sbjct: 62 DTPLGVRITFVVRPYPVLRAVQVAGNQVLTQEKVNEIFAPQIGRTLNLRELQA---GIEK 118
Query: 293 LNQFIEDNGFRLNSEGGVLKVSPDGLLLQSSTVADSFPFCFSDGVTESVPCSYI 346
+N F DNG+ L G +V PDG++ ++GV E V ++
Sbjct: 119 INTFYRDNGYILGQVVGTPQVDPDGVVT----------LQVAEGVVEQVTYRFL 162
>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 = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 263 AAWTLVNGY--AVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLN------SEGGVLKVS 314
+WTL G A + H + +++ + + D G RL S VLK++
Sbjct: 173 GSWTLTGGLPQAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMN 232
Query: 315 PDGLLLQSSTVADSFPFCFSDGVTESVPCSY 345
PDG+ L S+G + PC Y
Sbjct: 233 PDGIFL-------------SNGPGDPAPCDY 250
>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 = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 263 AAWTLVNGY--AVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLN------SEGGVLKVS 314
+WTL G A + H + +++ + + D G RL S VLK++
Sbjct: 173 GSWTLTGGLPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMN 232
Query: 315 PDGLLLQSSTVADSFPFCFSDGVTESVPCSY 345
PDG+ L S+G + PC Y
Sbjct: 233 PDGIFL-------------SNGPGDPAPCDY 250
>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 = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 263 AAWTLVNGY--AVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLN------SEGGVLKVS 314
+WTL G A + H + +++ + + D G RL S VLK++
Sbjct: 173 GSWTLTGGLPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMN 232
Query: 315 PDGLLLQSSTVADSFPFCFSDGVTESVPCSY 345
PDG+ L S+G + PC Y
Sbjct: 233 PDGIFL-------------SNGPGDPAPCDY 250
>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 = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 263 AAWTLVNGY--AVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLN------SEGGVLKVS 314
+WTL G A + H + +++ + + D G RL S VLK++
Sbjct: 173 GSWTLTGGLPQAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMN 232
Query: 315 PDGLLLQSSTVADSFPFCFSDGVTESVPCSY 345
PDG+ L S+G + PC Y
Sbjct: 233 PDGIFL-------------SNGPGDPAPCDY 250
>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 = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 263 AAWTLVNGY--AVNHVTISIHHLKSQLNNIKSLNQFIEDNGFRLN------SEGGVLKVS 314
+WTL G A + H + +++ + + D G RL S VLK++
Sbjct: 172 GSWTLTGGLPQAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMN 231
Query: 315 PDGLLLQSSTVADSFPFCFSDGVTESVPCSY 345
PDG+ L S+G + PC Y
Sbjct: 232 PDGIFL-------------SNGPGDPAPCDY 249
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
0.317 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,617,985
Number of Sequences: 62578
Number of extensions: 434665
Number of successful extensions: 981
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 972
Number of HSP's gapped (non-prelim): 19
length of query: 396
length of database: 14,973,337
effective HSP length: 101
effective length of query: 295
effective length of database: 8,652,959
effective search space: 2552622905
effective search space used: 2552622905
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)