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= 029871
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WSP|A Chain A, Crystal Structure Of Axin Dix Domain
pdb|1WSP|B Chain B, Crystal Structure Of Axin Dix Domain
pdb|1WSP|C Chain C, Crystal Structure Of Axin Dix Domain
Length = 84
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 80 KAQRLGHAFKELMDKYGEGELQMKEMADE----LMMDTTKDDEGLLP 122
+A LG FKEL+ K G K+++DE ++ + ++DE +LP
Sbjct: 25 RAVTLGQ-FKELLTKKGSYRYYFKKVSDEFDCGVVFEEVREDEAILP 70
>pdb|2D5G|A Chain A, Structure Of Ubiquitin Fold Protein R767e Mutant
pdb|2D5G|B Chain B, Structure Of Ubiquitin Fold Protein R767e Mutant
pdb|2D5G|C Chain C, Structure Of Ubiquitin Fold Protein R767e Mutant
pdb|2D5G|D Chain D, Structure Of Ubiquitin Fold Protein R767e Mutant
pdb|2D5G|E Chain E, Structure Of Ubiquitin Fold Protein R767e Mutant
pdb|2D5G|F Chain F, Structure Of Ubiquitin Fold Protein R767e Mutant
Length = 85
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 80 KAQRLGHAFKELMDKYGEGELQMKEMADE----LMMDTTKDDEGLLP 122
+A LG FKEL+ K G K+++DE ++ + ++DE +LP
Sbjct: 26 RAVTLGQ-FKELLTKKGSYRYYFKKVSDEFDCGVVFEEVREDEAILP 71
>pdb|2H7O|A Chain A, Crystal Structure Of The Rho-Gtpase Binding Domain Of Ypka
pdb|2H7V|C Chain C, Co-crystal Structure Of Ypka-rac1
pdb|2H7V|D Chain D, Co-crystal Structure Of Ypka-rac1
Length = 303
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 16 PLDFAE-EILTEADQYNGFNLVIVNIHSKSMVYVTNRSEGGKSIATEVSPGIHVLTNALL 74
LD AE E + DQ FN +I+ + YV R K+ +TEVSP + +N +L
Sbjct: 50 ALDKAEREGGVDKDQLKSFNSLILKTYRVIEDYVKGREGDTKNSSTEVSP--YHRSNFML 107
Query: 75 DSPWPKAQRL------GHAFKEL 91
P QR+ H+F ++
Sbjct: 108 SIVEPSLQRIQKHLDQTHSFSDI 130
>pdb|2DF4|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2G5H|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|A Chain A, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|A Chain A, The High Resolution Structure Of Gatcab
pdb|2F2A|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
Length = 485
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 41 HSKSMVYVTNRSEG-GKSIATEVSPGIHVLTNALLDSPWPKAQRLGHAFKELMDK 94
HS +Y +RSEG GK + + G L++ D+ + K+Q++ K DK
Sbjct: 337 HSLEELYKMSRSEGFGKEVKRRIFLGTFALSSGYYDAYYKKSQKVRTLIKNDFDK 391
>pdb|1ZUH|A Chain A, Structural Basis For Shikimate-Binding Specificity Of
Helicobacter Pylori Shikimate Kinase
pdb|1ZUI|A Chain A, Structural Basis For Shikimate-binding Specificity Of
Helicobacter Pylori Shikimate Kinase
pdb|3HR7|A Chain A, Crystal Structure Of The Shikimate Kinase-Sulfate Complex
From Helicobacter Pylori
pdb|3HR7|B Chain B, Crystal Structure Of The Shikimate Kinase-Sulfate Complex
From Helicobacter Pylori
pdb|3MUF|A Chain A, Shikimate Kinase From Helicobacter Pylori In Complex With
Shikimate-3- Phosphate And Adp
Length = 168
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 45 MVYVTNRSEGGKSIATEVSPGIHVLTNALLDSPWPKAQRLGHAFKELMDKYGEGELQM-- 102
+V + G S+A E+ + + +LD+ ++R+G + +E+ ++ GE +M
Sbjct: 10 LVLIGFMGSGKSSLAQELGLALKL---EVLDTDMIISERVGLSVREIFEELGEDNFRMFE 66
Query: 103 KEMADEL 109
K + DEL
Sbjct: 67 KNLIDEL 73
>pdb|2FTY|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FVK|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVM|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
Length = 559
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 6 FFTSNVSKKKPLDFAEEILTEADQYN--------GFNLVIVNIHSKSM 45
F T +VSKK P AE + + D+Y+ G +L++ I S+
Sbjct: 96 FSTQDVSKKGPSALAESVKLDVDEYSEQTLYCDYGLHLILFQIEKPSV 143
>pdb|1PM1|X Chain X, Crystal Structure Of Nitrophorin 2 L122vL132V MUTANT
Complex With Imidazole
pdb|2ALL|X Chain X, Crystal Structure Of L122vL132V MUTANT OF NITROPHORIN 2
pdb|2AMM|X Chain X, Crystal Structure Of L122vL132V MUTANT OF NITROPHORIN 2
Length = 180
Score = 26.9 bits (58), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 11 VSKKKPLDFAEEILTEADQYNGFNLVIVNI-HSKSMVYVTNRSEGGKSIA 59
+K K +D + +L EAD+ N + L ++ S ++V++ R EG K +
Sbjct: 83 TAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICVR-EGSKDLG 131
>pdb|3MRS|A Chain A, Crystal Structure Of Shikimate Kinase Mutant (R57a) From
Helicobacter Pylori
Length = 168
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 45 MVYVTNRSEGGKSIATEVSPGIHVLTNALLDSPWPKAQRLGHAFKELMDKYGEGELQM-- 102
+V + G S+A E+ + + +LD+ ++R+G + +E+ ++ GE M
Sbjct: 10 LVLIGFMGSGKSSLAQELGLALKL---EVLDTDMIISERVGLSVREIFEELGEDNFAMFE 66
Query: 103 KEMADEL 109
K + DEL
Sbjct: 67 KNLIDEL 73
>pdb|1EUO|A Chain A, Crystal Structure Of Nitrophorin 2 (Prolixin-S)
pdb|1PEE|A Chain A, Crystal Structure Of Nitrophorin 2 Complex With Imidazole
pdb|1T68|X Chain X, Crystal Structure Of Nitrophorin 2 Complex With No
pdb|2A3F|X Chain X, Crystal Structure Of Nitrophorin 2 Aqua Complex
pdb|2ACP|X Chain X, Crystal Structure Of Nitrophorin 2 Aqua Complex
pdb|2AH7|X Chain X, Crystal Structure Of Nitrophorin 2 Aqua Complex
pdb|2AL0|X Chain X, Crystal Structure Of Nitrophorin 2 Ferrous Aqua Complex
pdb|2HYS|A Chain A, Crystal Structure Of Nitrophorin 2 Complexed With Cyanide
pdb|2GTF|X Chain X, Crystal Structure Of Nitrophorin 2 Complex With Pyrimidine
Length = 180
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 11 VSKKKPLDFAEEILTEADQYNGFNLVIVNI-HSKSMVYVTNRSEGGKSIA 59
+K K +D + +L EAD+ N + L ++ S ++V++ R EG K +
Sbjct: 83 TAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICLR-EGSKDLG 131
>pdb|2ASN|X Chain X, Crystal Structure Of D1a Mutant Of Nitrophorin 2 Complexed
With Imidazole
pdb|2EU7|X Chain X, Crystal Structure Of D1a Mutant Of Nitrophorin 2 Complexed
With Ammonia
Length = 179
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 11 VSKKKPLDFAEEILTEADQYNGFNLVIVNI-HSKSMVYVTNRSEGGKSIA 59
+K K +D + +L EAD+ N + L ++ S ++V++ R EG K +
Sbjct: 82 TAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICLR-EGSKDLG 130
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 77 PWPKAQRLGHAFKELMDKYGEGELQMKEMADELMM----DTTKDDEGLLPHIYPPETESH 132
P+P +LG E + Y + +LQ K+ D M+ K+ L + P T++
Sbjct: 565 PFPNIVQLGLCEPETSEVYQQAKLQAKQEVDNGMLYLEWINKKNITNLSRLVVRPHTDAV 624
Query: 133 LSSIFIDTERPLGRYGTRSTSSLYVKSNGE 162
+ F + + + G T ++ GE
Sbjct: 625 YHACFSEDGQRIASCGADKTLQVFKAETGE 654
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
0.314 0.132 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,685,596
Number of Sequences: 62578
Number of extensions: 227076
Number of successful extensions: 463
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 458
Number of HSP's gapped (non-prelim): 18
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)