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= 019940
(333 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QV7|A Chain A, Crystal Structure Of Diacylglycerol Kinase Dgkb In Complex
With Adp And Mg
pdb|2QVL|A Chain A, Crystal Structure Of Diacylglycerol Kinase
Length = 337
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 6/62 (9%)
Query: 152 LIVAGGDGTASWLLGVVSDLKLPHSPPVATVPLGTGNNIPFSFGWGKKNPNTDQQAVLSF 211
LI AGGDGT + ++ +++ P+ P + +P GT N+ FG PN A+
Sbjct: 84 LIAAGGDGTLNEVVNGIAE--KPNRPKLGVIPXGTVND----FGRALHIPNDIXGALDVI 137
Query: 212 LE 213
+E
Sbjct: 138 IE 139
>pdb|4A08|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
pdb|4A0A|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
pdb|4A0B|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|D Chain D, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0K|D Chain D, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|B Chain B, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|D Chain D, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 382
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 107 LLNENQVIDLGEKAPDKVLHQL-------YVTLEKFKAAGDVFAS 144
LLN+ + ID+ + ++HQL ++L KF GDV AS
Sbjct: 324 LLNDKRTIDIYDANSGGLVHQLRDPNAAGIISLNKFSPTGDVLAS 368
>pdb|3EI1|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4
Photoproduct Containing Dna-Duplex
pdb|3EI2|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|B Chain B, Structure Of The Hsddb1-Drddb2 Complex
Length = 383
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 107 LLNENQVIDLGEKAPDKVLHQL-------YVTLEKFKAAGDVFAS 144
LLN+ + ID+ + ++HQL ++L KF GDV AS
Sbjct: 325 LLNDKRTIDIYDANSGGLVHQLRDPNAAGIISLNKFSPTGDVLAS 369
>pdb|2BON|A Chain A, Structure Of An Escherichia Coli Lipid Kinase (Yegs)
pdb|2BON|B Chain B, Structure Of An Escherichia Coli Lipid Kinase (Yegs)
Length = 332
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%)
Query: 130 VTLEKFKAAGDVFASEIEKRLRLIVAGGDGTASWLLGVVSDLKLPHSPPVATVPLGTGNN 189
VT EK AA V + +I GGDGT + + + + P + +PLGT N+
Sbjct: 64 VTWEKGDAARYVEEARKFGVATVIAGGGDGTINEVSTALIQCEGDDIPALGILPLGTAND 123
Query: 190 IPFSFG 195
S G
Sbjct: 124 FATSVG 129
>pdb|2JGR|A Chain A, Crystal Structure Of Yegs In Complex With Adp
Length = 299
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%)
Query: 128 LYVTLEKFKAAGDVFASEIEKRLRLIVAGGDGTASWLLGVVSDLKLPHSPPVATVPLGTG 187
+ VT EK AA V + +I GGDGT + + + + P + +PLGT
Sbjct: 37 VRVTWEKGDAARYVEEARKFGVATVIAGGGDGTINEVSTALIQCEGDDIPALGILPLGTA 96
Query: 188 NNIPFSFG 195
N+ S G
Sbjct: 97 NDFATSVG 104
>pdb|2H3B|A Chain A, Crystal Structure Of Mouse Nicotinamide
PhosphoribosyltransferaseVISFATINPRE-B Cell Colony
Enhancing Factor 1
pdb|2H3B|B Chain B, Crystal Structure Of Mouse Nicotinamide
PhosphoribosyltransferaseVISFATINPRE-B Cell Colony
Enhancing Factor 1
Length = 494
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 5 NKRSFAGNQTEMRDKKGFFNSVASGSGTILRPLHDLLH 42
NKRS G + R G F ++ G G + HDLLH
Sbjct: 425 NKRSKKGRLSXHRTPAGNFVTLEEGKGDLEEYGHDLLH 462
>pdb|2P1R|A Chain A, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|B Chain B, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|C Chain C, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|D Chain D, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases
Length = 299
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 152 LIVAGGDGTASWLLGVVSDLKLPHSPPVATVPLGTGNNIPFSFG 195
+I GGDGT + + + ++ +P + +PLGT N+ S G
Sbjct: 61 VIAGGGDGTINEVSTALIQIRDGVAPALGLLPLGTANDFATSAG 104
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 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,882,944
Number of Sequences: 62578
Number of extensions: 400069
Number of successful extensions: 891
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 887
Number of HSP's gapped (non-prelim): 9
length of query: 333
length of database: 14,973,337
effective HSP length: 99
effective length of query: 234
effective length of database: 8,778,115
effective search space: 2054078910
effective search space used: 2054078910
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)