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= 036427
(536 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S2U|A Chain A, Crystal Structure Of The Pseudomonas Aeruginosa
Murg:udp-Glcnac Substrate Complex
Length = 365
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 409 IPVQVKGFVSKMEEAMGACDCIITKAGPGTIAEAMIRGLPIILNDF---IAGQEAGNVPY 465
+ V F+S M A D +I +AG T++E GLP L I + N +
Sbjct: 235 VEADVAPFISDMAAAYAWADLVICRAGALTVSELTAAGLPAFLVPLPHAIDDHQTRNAEF 294
Query: 466 VVENGCGKF----SKSPKEIANMVSQWFGPKIDELKAMSQNALKLARPDAVFRIVQDLHE 521
+V +G G+ S E+A +S+ + L++M+ A LA+P+A +V E
Sbjct: 295 LVRSGAGRLLPQKSTGAAELAAQLSEVLM-HPETLRSMADQARSLAKPEATRTVVDACLE 353
Query: 522 LVR 524
+ R
Sbjct: 354 VAR 356
>pdb|3Q3C|A Chain A, Crystal Structure Of A Serine Dehydrogenase From
Pseudomonas Aeruginosa Pao1 In Complex With Nad
Length = 299
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 248 DIIISVHPLMQHVPLRILRAKGLLKKIVFTTVITDLSTCHPTWFHKL 294
D++IS P QHV L GLL I T++ + ST PT K+
Sbjct: 60 DVVISXLPASQHVEGLYLDDDGLLAHIAPGTLVLECSTIAPTSARKI 106
>pdb|3OBB|A Chain A, Crystal Structure Of A Possible 3-Hydroxyisobutyrate
Dehydrogenase From Pseudomonas Aeruginosa Pao1
Length = 300
Score = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 248 DIIISVHPLMQHVPLRILRAKGLLKKIVFTTVITDLSTCHPTWFHKL 294
D++IS P QHV L GLL I T++ + ST PT K+
Sbjct: 61 DVVISXLPASQHVEGLYLDDDGLLAHIAPGTLVLECSTIAPTSARKI 107
>pdb|1ZLQ|A Chain A, Crystallographic And Spectroscopic Evidence For High
Affinity Binding Of Fe Edta (h2o)- To The Periplasmic
Nickel Transporter Nika
pdb|1ZLQ|B Chain B, Crystallographic And Spectroscopic Evidence For High
Affinity Binding Of Fe Edta (h2o)- To The Periplasmic
Nickel Transporter Nika
pdb|3DP8|A Chain A, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3DP8|B Chain B, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3DP8|C Chain C, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3E3K|A Chain A, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3E3K|B Chain B, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3E3K|C Chain C, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3MVW|A Chain A, X-Ray Structure Of A "nika+iron Complex" Hybrid, Nika1
pdb|3MVW|B Chain B, X-Ray Structure Of A "nika+iron Complex" Hybrid, Nika1
pdb|3MVX|A Chain A, X-Ray Structure Of The Reduced Nika1 HYBRID, NIKA1-Red
pdb|3MVX|B Chain B, X-Ray Structure Of The Reduced Nika1 HYBRID, NIKA1-Red
pdb|3MVY|A Chain A, X-Ray Structure Of The Diatomic Oxo-Intermediate
Nika1-Int', Prior Hydroxylation
pdb|3MVY|B Chain B, X-Ray Structure Of The Diatomic Oxo-Intermediate
Nika1-Int', Prior Hydroxylation
pdb|3MVZ|A Chain A, X-Ray Structure Of The (Hydro)peroxo Intermediate
Nika1-Int", After Monohydroxylation Of The Iron Complex
pdb|3MVZ|B Chain B, X-Ray Structure Of The (Hydro)peroxo Intermediate
Nika1-Int", After Monohydroxylation Of The Iron Complex
pdb|3MW0|A Chain A, X-Ray Structure Of The Doubly Hydroxylated Iron
Complex-Nika Species, Nika1O2
pdb|3MW0|B Chain B, X-Ray Structure Of The Doubly Hydroxylated Iron
Complex-Nika Species, Nika1O2
pdb|3MZ9|A Chain A, X-Ray Structure Of Nika In Complex With Hbed
pdb|3MZ9|B Chain B, X-Ray Structure Of Nika In Complex With Hbed
pdb|4DCX|A Chain A, X-Ray Structure Of Nika In Complex With
Fe(1r,2r)-N,N'-Bis(2-
Pyridylmethyl)-N,N'-Dicarboxymethyl-1,
2-Cyclohexanediamine
pdb|4DCX|B Chain B, X-Ray Structure Of Nika In Complex With
Fe(1r,2r)-N,N'-Bis(2-
Pyridylmethyl)-N,N'-Dicarboxymethyl-1,
2-Cyclohexanediamine
pdb|4DCY|A Chain A, X-Ray Structure Of Nika In Complex With
Fe(1s,2s)-N,N-Kappa-Bis(2-
Pyridylmethyl)-N-Carboxymethyl-N-Kappa-Methyl-1,
2-Cyclohexanediamine
pdb|4DCY|B Chain B, X-Ray Structure Of Nika In Complex With
Fe(1s,2s)-N,N-Kappa-Bis(2-
Pyridylmethyl)-N-Carboxymethyl-N-Kappa-Methyl-1,
2-Cyclohexanediamine
pdb|4I8C|A Chain A, X-ray Structure Of Nika In Complex With Ni-(l-his)2
pdb|4I8C|B Chain B, X-ray Structure Of Nika In Complex With Ni-(l-his)2
pdb|4I8C|C Chain C, X-ray Structure Of Nika In Complex With Ni-(l-his)2
Length = 502
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 355 LMGGGEGMGPIEATARALGNALYDENLGEPIGQVLVICGRNKKLANKL 402
L+ G EG+ P++ AR N Y L +PI V++ K N+L
Sbjct: 216 LLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNEL 263
>pdb|1UIU|A Chain A, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Unliganded Form)
pdb|1UIU|B Chain B, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Unliganded Form)
pdb|1UIV|A Chain A, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Liganded Form)
pdb|1UIV|B Chain B, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Liganded Form)
Length = 502
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 355 LMGGGEGMGPIEATARALGNALYDENLGEPIGQVLVICGRNKKLANKL 402
L+ G EG+ P++ AR N Y L +PI V++ K N+L
Sbjct: 216 LLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNEL 263
>pdb|3MZB|A Chain A, X-Ray Structure Of Nika In Complex With The Doubly
Hydroxylated Iron Complex, 1-O2
pdb|3MZB|B Chain B, X-Ray Structure Of Nika In Complex With The Doubly
Hydroxylated Iron Complex, 1-O2
Length = 501
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 355 LMGGGEGMGPIEATARALGNALYDENLGEPIGQVLVICGRNKKLANKL 402
L+ G EG+ P++ AR N Y L +PI V++ K N+L
Sbjct: 216 LLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNEL 263
>pdb|3QIM|A Chain A, Histidine 416 Of The Periplamsic Binding Protein Nika Is
Essential For Nickel Uptake In Escherichia Coli
pdb|3QIM|B Chain B, Histidine 416 Of The Periplamsic Binding Protein Nika Is
Essential For Nickel Uptake In Escherichia Coli
Length = 502
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 355 LMGGGEGMGPIEATARALGNALYDENLGEPIGQVLVICGRNKKLANKL 402
L+ G EG+ P++ AR N Y L +PI V++ K N+L
Sbjct: 216 LLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNEL 263
>pdb|2NOO|A Chain A, Crystal Structure Of Mutant Nika
Length = 502
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 355 LMGGGEGMGPIEATARALGNALYDENLGEPIGQVLVICGRNKKLANKL 402
L+ G EG+ P++ AR N Y L +PI V++ K N+L
Sbjct: 216 LLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNEL 263
>pdb|1HKH|A Chain A, Unligated Gamma Lactamase From An Aureobacterium Species
pdb|1HKH|B Chain B, Unligated Gamma Lactamase From An Aureobacterium Species
pdb|1HL7|A Chain A, Gamma Lactamase From An Aureobacterium Species In Complex
With 3a,4,7,7a-Tetrahydro-Benzo [1,3] Dioxol-2-One
pdb|1HL7|B Chain B, Gamma Lactamase From An Aureobacterium Species In Complex
With 3a,4,7,7a-Tetrahydro-Benzo [1,3] Dioxol-2-One
Length = 279
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 43/107 (40%), Gaps = 14/107 (13%)
Query: 290 WFHKLVTRCYCPTADVAKRAMKAGLQAS------QIKVYGLPVRPSFVKPVRPKVELRRE 343
WF Y ++ R + + S V V P++++ R VE R
Sbjct: 158 WFTDFYKNFYNLDENLGSRISEQAVTGSWNVAIGSAPVAAYAVVPAWIEDFRSDVEAVRA 217
Query: 344 LGMDEDLPAVLLMGGGEGMGPIEATAR----ALGNALYDENLGEPIG 386
G P ++L G + + PI+ATAR A+ A Y E G P G
Sbjct: 218 AGK----PTLILHGTKDNILPIDATARRFHQAVPEADYVEVEGAPHG 260
>pdb|2FEZ|A Chain A, Mycobacterium Tuberculosis Embr
pdb|2FF4|A Chain A, Mycobacterium Tuberculosis Embr In Complex With Low
Affinity Phosphopeptide
pdb|2FF4|B Chain B, Mycobacterium Tuberculosis Embr In Complex With Low
Affinity Phosphopeptide
Length = 388
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/120 (20%), Positives = 53/120 (44%), Gaps = 17/120 (14%)
Query: 389 LVICGRNKKLA-NKLLSTDWK------IPVQVKGFVSKMEEAMGACD----CIITKAGPG 437
+++ RN+ + + L++ W+ + +VS + + +G ++ A PG
Sbjct: 41 MLVINRNRPVGVDALITALWEEWPPSGARASIHSYVSNLRKLLGGAGIDPRVVLAAAPPG 100
Query: 438 TIAEAMIRGLPIILNDFIAGQEAGNVPYVVENGCGKFSKSPKEIANMVSQWFGPKIDELK 497
I L F+A + AG V G+F ++ + ++ + +W GP +D+L+
Sbjct: 101 Y--RLSIPDNTCDLGRFVAEKTAG----VHAAAAGRFEQASRHLSAALREWRGPVLDDLR 154
>pdb|3VDX|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|D Chain D, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|E Chain E, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|F Chain F, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|G Chain G, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|H Chain H, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|I Chain I, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|J Chain J, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|K Chain K, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|L Chain L, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
Length = 456
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 349 DLPAVLLMGGGEGMGPIEATAR----ALGNALYDENLGEPIG 386
D+PA++L G G+ PIE TAR AL +A Y E G P G
Sbjct: 218 DVPALILHGTGDRTLPIENTARVFHKALPSAEYVEVEGAPHG 259
>pdb|1BRT|A Chain A, Bromoperoxidase A2 Mutant M99t
Length = 277
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 349 DLPAVLLMGGGEGMGPIEATAR----ALGNALYDENLGEPIG 386
D+PA++L G G+ PIE TAR AL +A Y E G P G
Sbjct: 217 DVPALILHGTGDRTLPIENTARVFHKALPSAEYVEVEGAPHG 258
>pdb|1A7U|A Chain A, Chloroperoxidase T
pdb|1A7U|B Chain B, Chloroperoxidase T
pdb|1A8U|A Chain A, Chloroperoxidase TBENZOATE COMPLEX
pdb|1A8U|B Chain B, Chloroperoxidase TBENZOATE COMPLEX
Length = 277
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 349 DLPAVLLMGGGEGMGPIEATAR----ALGNALYDENLGEPIG 386
D+PA++L G G+ PIE TAR AL +A Y E G P G
Sbjct: 217 DVPALILHGTGDRTLPIENTARVFHKALPSAEYVEVEGAPHG 258
>pdb|1BRO|A Chain A, Bromoperoxidase A2
pdb|1BRO|B Chain B, Bromoperoxidase A2
Length = 277
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 349 DLPAVLLMGGGEGMGPIEATAR----ALGNALYDENLGEPIG 386
D+PA++L G G+ PIE TAR AL +A Y E G P G
Sbjct: 217 DVPALILHGTGDRTLPIENTARVFHKALPSAEYVEVEGAPHG 258
>pdb|3S55|A Chain A, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|B Chain B, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|C Chain C, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|D Chain D, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|E Chain E, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|F Chain F, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|G Chain G, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
pdb|3S55|H Chain H, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE From Mycobacterium Abscessus
Bound To Nad
Length = 281
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 45/100 (45%), Gaps = 13/100 (13%)
Query: 354 LLMGGGEGMGPIEATARALGNA---LYD--EN---LGEPIG---QVLVICGRNKKLANKL 402
L+ GG GMG A A A A + D EN +G P+ + +K +
Sbjct: 14 LITGGARGMGRSHAVALAEAGADIAICDRCENSDVVGYPLATADDLAETVALVEKTGRRC 73
Query: 403 LST--DWKIPVQVKGFVSKMEEAMGACDCIITKAGPGTIA 440
+S D K ++ FV++ E+ +G D IT AG TIA
Sbjct: 74 ISAKVDVKDRAALESFVAEAEDTLGGIDIAITNAGISTIA 113
>pdb|3KGX|A Chain A, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.80 A Resolution
pdb|3KGX|B Chain B, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.80 A Resolution
pdb|3KGW|A Chain A, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.65 A Resolution
pdb|3KGW|B Chain B, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.65 A Resolution
Length = 393
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 193 FNQLPRSYNFLVKHGPLWKMTYYGTAPRV---IHQSNFAATSTFIAREVAKGLMKYQPDI 249
FN L +FL +W M A R+ +HQ + +EV +GL +++P +
Sbjct: 92 FNLLEPGDSFLTGTNGIWGMRAAEIADRIGARVHQMIKKPGEHYTLQEVEEGLAQHKPVL 151
Query: 250 IISVH 254
+ VH
Sbjct: 152 LFLVH 156
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
0.320 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,943,365
Number of Sequences: 62578
Number of extensions: 610335
Number of successful extensions: 1373
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1359
Number of HSP's gapped (non-prelim): 18
length of query: 536
length of database: 14,973,337
effective HSP length: 103
effective length of query: 433
effective length of database: 8,527,803
effective search space: 3692538699
effective search space used: 3692538699
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: 54 (25.4 bits)