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= 029744
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F3Y|A Chain A, Solution Structure Of The Nudix Enzyme Diadenosine
Tetraphosphate Hydrolase From Lupinus Angustifolius L.
pdb|1JKN|A Chain A, Solution Structure Of The Nudix Enzyme Diadenosine
Tetraphosphate Hydrolase From Lupinus Angustifolius
Complexed With Atp
Length = 165
Score = 215 bits (548), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 104/161 (64%), Positives = 119/161 (73%), Gaps = 31/161 (19%)
Query: 58 SMDAPPEGYRRNVGICLINSSKKIFAASRLDIPDSWQMPQ-------------------- 97
SMD+PPEGYRRNVGICL+N+ KKIFAASRLDIPD+WQMPQ
Sbjct: 5 SMDSPPEGYRRNVGICLMNNDKKIFAASRLDIPDAWQMPQGGIDEGEDPRNAAIRELREE 64
Query: 98 -----------VPYWLTYDFPPEVREKLKHQWGGDWKGQAQKWFLLKFTGKEEEINLLGD 146
VPYWLTYDFPP+VREKL QWG DWKGQAQKWFL KFTG+++EINLLGD
Sbjct: 65 TGVTSAEVIAEVPYWLTYDFPPKVREKLNIQWGSDWKGQAQKWFLFKFTGQDQEINLLGD 124
Query: 147 KSEKPEFGEWKWMSPEQILERAVDFKKPVYKEVFTVFTPHL 187
SEKPEFGEW W++PEQ+++ V+FKKPVYKEV +VF PHL
Sbjct: 125 GSEKPEFGEWSWVTPEQLIDLTVEFKKPVYKEVLSVFAPHL 165
>pdb|2KDW|A Chain A, Solution Structure Of Rpph Mutant E53a From Escherichia
Coli
Length = 164
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 47/158 (29%), Positives = 62/158 (39%), Gaps = 47/158 (29%)
Query: 64 EGYRRNVGICLINSSKKIFAASRLDIPDSWQMPQ-------------------------- 97
+GYR NVGI + N ++ A R SWQ PQ
Sbjct: 5 DGYRPNVGIVICNRQGQVMWARRFG-QHSWQFPQGGINPGESAEQAMYRALFEEVGLSRK 63
Query: 98 -------VPYWLTYDFPPEVREKLKHQWGGDWK----GQAQKWFLLKFTGKEEEINLLGD 146
WL Y P + +W D K GQ QKWFLL+ + EIN+
Sbjct: 64 DVRILASTRNWLRYKLPKRL-----VRW--DTKPVCIGQKQKWFLLQLVSGDAEINM--Q 114
Query: 147 KSEKPEFGEWKWMSPEQILERAVDFKKPVYKEVFTVFT 184
S PEF W+W+S + + V FK+ VY+ V F
Sbjct: 115 TSSTPEFDGWRWVSYWYPVRQVVSFKRDVYRRVMKEFA 152
>pdb|2KDV|A Chain A, Solution Structure Of Rna Pyrophosphohydrolase Rpph From
Escherichia Coli
Length = 164
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 47/158 (29%), Positives = 62/158 (39%), Gaps = 47/158 (29%)
Query: 64 EGYRRNVGICLINSSKKIFAASRLDIPDSWQMPQ-------------------------- 97
+GYR NVGI + N ++ A R SWQ PQ
Sbjct: 5 DGYRPNVGIVICNRQGQVMWARRFG-QHSWQFPQGGINPGESAEQAMYRELFEEVGLSRK 63
Query: 98 -------VPYWLTYDFPPEVREKLKHQWGGDWK----GQAQKWFLLKFTGKEEEINLLGD 146
WL Y P + +W D K GQ QKWFLL+ + EIN+
Sbjct: 64 DVRILASTRNWLRYKLPKRL-----VRW--DTKPVCIGQKQKWFLLQLVSGDAEINM--Q 114
Query: 147 KSEKPEFGEWKWMSPEQILERAVDFKKPVYKEVFTVFT 184
S PEF W+W+S + + V FK+ VY+ V F
Sbjct: 115 TSSTPEFDGWRWVSYWYPVRQVVSFKRDVYRRVMKEFA 152
>pdb|1BCC|D Chain D, Cytochrome Bc1 Complex From Chicken
pdb|3BCC|D Chain D, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
From Chicken
pdb|2BCC|D Chain D, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
Length = 241
Score = 29.6 bits (65), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 51 QICSSSYSMDAPPEGYRRNVGICLINSSKKIFA 83
Q+CSS +SMD YR VG+C K A
Sbjct: 35 QVCSSCHSMDY--VAYRHLVGVCYTEDEAKALA 65
>pdb|1BGY|D Chain D, Cytochrome Bc1 Complex From Bovine
pdb|1BGY|P Chain P, Cytochrome Bc1 Complex From Bovine
pdb|1BE3|D Chain D, Cytochrome Bc1 Complex From Bovine
pdb|1L0L|D Chain D, Structure Of Bovine Mitochondrial Cytochrome Bc1 Complex
With A Bound Fungicide Famoxadone
pdb|1L0N|D Chain D, Native Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex
pdb|1NTK|D Chain D, Crystal Structure Of Mitochondrial Cytochrome Bc1 In
Complex With Antimycin A1
pdb|1NTM|D Chain D, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complex At 2.4 Angstrom
pdb|1NTZ|D Chain D, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complex Bound With Ubiquinone
pdb|1NU1|D Chain D, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complexed With 2- Nonyl-4-Hydroxyquinoline N-Oxide
(Nqno)
pdb|1PP9|D Chain D, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PP9|Q Chain Q, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PPJ|D Chain D, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|1PPJ|Q Chain Q, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|1SQB|D Chain D, Crystal Structure Analysis Of Bovine Bc1 With
Azoxystrobin
pdb|2A06|D Chain D, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|2A06|Q Chain Q, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1SQV|D Chain D, Crystal Structure Analysis Of Bovine Bc1 With Uhdbt
pdb|1SQX|D Chain D, Crystal Structure Analysis Of Bovine Bc1 With
Stigmatellin A
pdb|1SQP|D Chain D, Crystal Structure Analysis Of Bovine Bc1 With
Myxothiazol
pdb|1SQQ|D Chain D, Crystal Structure Analysis Of Bovine Bc1 With Methoxy
Acrylate Stilbene (Moas)
pdb|2FYU|D Chain D, Crystal Structure Of Bovine Heart Mitochondrial Bc1 With
Jg144 Inhibitor
pdb|2YBB|D Chain D, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|2YBB|DD Chain d, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 241
Score = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 51 QICSSSYSMDAPPEGYRRNVGICLINSSKKIFA 83
Q+CSS +SMD YR VG+C K A
Sbjct: 35 QVCSSCHSMDY--VAYRHLVGVCYTEDEAKALA 65
>pdb|2D36|A Chain A, The Crystal Structure Of Flavin Reductase Hpac
pdb|2D37|A Chain A, The Crystal Structure Of Flavin Reductase Hpac Complexed
With Nad+
pdb|2D38|A Chain A, The Crystal Structure Of Flavin Reductase Hpac Complexed
With Nadp+
Length = 176
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 107 PPEVREKLKHQWGGDWKGQAQKWFLLKFTGKEEEINLLGDKSEKPEFGEWKW 158
PP V G D + K+F++ FT EE N+ K K F E K+
Sbjct: 62 PPLVSFFADRMKGNDIPYKESKYFVVNFTDNEELFNIFALKPVKERFREIKY 113
>pdb|3GOD|A Chain A, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|B Chain B, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|C Chain C, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|D Chain D, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
Length = 328
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 25/101 (24%)
Query: 42 NLPLVHHQNQICSSSYSMD--APPEGYRRNV--GICLINSSKKIFAASRLDIPDSWQMPQ 97
N+P+ + + + + S+ A E R V G C +F+A+ +D+ SW PQ
Sbjct: 53 NIPIANTTSLLLGTGTSITQAAXRELARAGVLVGFC-GGGGTPLFSANEVDVEVSWLTPQ 111
Query: 98 VPY--------WLTYDFPPEVR------------EKLKHQW 118
Y W+ + F E R E+++H W
Sbjct: 112 SEYRPTEYLQRWVGFWFDEEKRLVAARHFQRARLERIRHSW 152
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
0.318 0.135 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,120,383
Number of Sequences: 62578
Number of extensions: 256713
Number of successful extensions: 822
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 812
Number of HSP's gapped (non-prelim): 12
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
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: 48 (23.1 bits)