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= 040594
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B64|A Chain A, Solution Structure Of The Guanine Nucleotide Exchange
Factor Domain From Human Elongation Factor-One Beta,
Nmr, 20 Structures
Length = 91
Score = 80.9 bits (198), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 51/126 (40%), Positives = 65/126 (51%), Gaps = 38/126 (30%)
Query: 110 GKSLVLLDIKPWDDETDIQKLDEAVRGIKMEGQCRSTEVNAGQQRPVPFQRKSGEFLRRS 169
KS +LLD+KPWDDETD+ KL+E VR I+ +G +
Sbjct: 4 AKSSILLDVKPWDDETDMAKLEECVRSIQADGLVWGS----------------------- 40
Query: 170 GEVLVKFRCISGAKLVPVGYGIKKLQIMLTIVDDLVSVDNLIEEHLMAEPINEYVQSCDI 229
+KLVPVGYGIKKLQI + DD V D ++EE + A +YVQS D+
Sbjct: 41 ------------SKLVPVGYGIKKLQIQCVVEDDKVGTD-MLEEQITA--FEDYVQSMDV 85
Query: 230 VAFNKI 235
AFNKI
Sbjct: 86 AAFNKI 91
>pdb|1IJE|B Chain B, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
Complex
pdb|1IJF|B Chain B, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba Complex
Length = 90
Score = 63.5 bits (153), Expect = 1e-10, Method: Composition-based stats.
Identities = 40/126 (31%), Positives = 60/126 (47%), Gaps = 38/126 (30%)
Query: 110 GKSLVLLDIKPWDDETDIQKLDEAVRGIKMEGQCRSTEVNAGQQRPVPFQRKSGEFLRRS 169
KS+V LD+KPWDDET+++++ V+ I+MEG
Sbjct: 3 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAH---------------------- 40
Query: 170 GEVLVKFRCISGAKLVPVGYGIKKLQIMLTIVDDLVSVDNLIEEHLMAEPINEYVQSCDI 229
+ +P+G+GIKKLQI + DD VS+D+L + E ++VQS DI
Sbjct: 41 -------------QFIPIGFGIKKLQINCVVEDDKVSLDDLQQS---IEEDEDHVQSTDI 84
Query: 230 VAFNKI 235
A K+
Sbjct: 85 AAMQKL 90
>pdb|1F60|B Chain B, Crystal Structure Of The Yeast Elongation Factor Complex
Eef1a:eef1ba
pdb|1G7C|B Chain B, Yeast Eef1a:eef1ba In Complex With Gdpnp
Length = 94
Score = 63.5 bits (153), Expect = 1e-10, Method: Composition-based stats.
Identities = 40/126 (31%), Positives = 60/126 (47%), Gaps = 38/126 (30%)
Query: 110 GKSLVLLDIKPWDDETDIQKLDEAVRGIKMEGQCRSTEVNAGQQRPVPFQRKSGEFLRRS 169
KS+V LD+KPWDDET+++++ V+ I+MEG
Sbjct: 7 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAH---------------------- 44
Query: 170 GEVLVKFRCISGAKLVPVGYGIKKLQIMLTIVDDLVSVDNLIEEHLMAEPINEYVQSCDI 229
+ +P+G+GIKKLQI + DD VS+D+L + E ++VQS DI
Sbjct: 45 -------------QFIPIGFGIKKLQINCVVEDDKVSLDDLQQS---IEEDEDHVQSTDI 88
Query: 230 VAFNKI 235
A K+
Sbjct: 89 AAMQKL 94
>pdb|2B7B|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a And Gdp
pdb|2B7C|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a
Length = 94
Score = 61.2 bits (147), Expect = 6e-10, Method: Composition-based stats.
Identities = 39/126 (30%), Positives = 59/126 (46%), Gaps = 38/126 (30%)
Query: 110 GKSLVLLDIKPWDDETDIQKLDEAVRGIKMEGQCRSTEVNAGQQRPVPFQRKSGEFLRRS 169
KS+V LD+KPWDDET+++++ V+ I+MEG
Sbjct: 7 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAH---------------------- 44
Query: 170 GEVLVKFRCISGAKLVPVGYGIKKLQIMLTIVDDLVSVDNLIEEHLMAEPINEYVQSCDI 229
+ +P+G+GIKKLQI + DD VS+D+L + E ++VQS DI
Sbjct: 45 -------------QFIPIGFGIKKLQINCVVEDDKVSLDDLQQS---IEEDEDHVQSTDI 88
Query: 230 VAFNKI 235
A +
Sbjct: 89 AAMQAL 94
>pdb|3N77|A Chain A, Crystal Structure Of Idp01880, Putative Ntp
Pyrophosphohydrolase Of Salmonella Typhimurium Lt2
pdb|3N77|B Chain B, Crystal Structure Of Idp01880, Putative Ntp
Pyrophosphohydrolase Of Salmonella Typhimurium Lt2
Length = 144
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 106 KEEFGKSLVLLDIKPWDDETDIQ 128
+EE G+ L+L DI PW DI+
Sbjct: 58 REELGEQLILSDITPWTFRDDIR 80
>pdb|3OGA|A Chain A, 1.75 Angstrom Resolution Crystal Structure Of A Putative
Ntp Pyrophosphohydrolase (Yfao) From Salmonella
Typhimurium Lt2
pdb|3OGA|B Chain B, 1.75 Angstrom Resolution Crystal Structure Of A Putative
Ntp Pyrophosphohydrolase (Yfao) From Salmonella
Typhimurium Lt2
Length = 165
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 106 KEEFGKSLVLLDIKPWDDETDIQ 128
+EE G+ L+L DI PW DI+
Sbjct: 79 REELGEQLILSDITPWTFRDDIR 101
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 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,701,520
Number of Sequences: 62578
Number of extensions: 238091
Number of successful extensions: 474
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 463
Number of HSP's gapped (non-prelim): 11
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)