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= 022825
(291 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RVY|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Ile217cys, 2.7 A)
pdb|3RVY|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Ile217cys, 2.7 A)
pdb|3RVZ|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Ile217cys, 2.8 A)
pdb|3RVZ|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Ile217cys, 2.8 A)
Length = 285
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 34/53 (64%), Gaps = 9/53 (16%)
Query: 75 ISLLEDEMDKFNSFFVEKEEEYIIRLKELQDRVANANDSNEELIKIRKEIVDL 127
+++ D M N +KEE++II E+Q ++ ++ N E+IK+R+EIV+L
Sbjct: 232 VAICVDAMAILN----QKEEQHII--DEVQ---SHEDNINNEIIKLREEIVEL 275
>pdb|3KEY|A Chain A, Crystal Structure Of S. Cerevisiae Stn1 C-Terminal
Length = 185
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 146 VKILKKYDKRTGALIRLPFIQRVLQQPFFTTDLIYRLVKQCEKMLDGLFP 195
+ +L K TG ++L +Q L P+ TT+ I + K+C K +P
Sbjct: 103 ISVLMKLQCYTGT-VQLSHVQEKLHLPYITTNGIVDVFKECLKRTKKQYP 151
>pdb|3K10|A Chain A, Crystal Structure Of Telomere Capping Protein Stn1 From
Saccharomyces Cerevisiae
Length = 179
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 146 VKILKKYDKRTGALIRLPFIQRVLQQPFFTTDLIYRLVKQCEKMLDGLFP 195
+ +L K TG ++L +Q L P+ TT+ I + K+C K +P
Sbjct: 100 ISVLMKLQCYTGT-VQLSHVQEKLHLPYITTNGIVDVFKECLKRTKKQYP 148
>pdb|1Z47|A Chain A, Structure Of The Atpase Subunit Cysa Of The Putative
Sulfate Atp-Binding Cassette (Abc) Transporter From
Alicyclobacillus Acidocaldarius
pdb|1Z47|B Chain B, Structure Of The Atpase Subunit Cysa Of The Putative
Sulfate Atp-Binding Cassette (Abc) Transporter From
Alicyclobacillus Acidocaldarius
Length = 355
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 4/76 (5%)
Query: 58 EDVKATDGYMSREEIDFISLLEDEMDKFNSFFVEKEEEYIIRLKELQDRVANANDSNEEL 117
E A D + RE F+ + DEM + F +EE + E+ DRV ++ N E
Sbjct: 171 EPFAAIDTQIRRELRTFVRQVHDEMGVTSVFVTHDQEEAL----EVADRVLVLHEGNVEQ 226
Query: 118 IKIRKEIVDLHGEMVL 133
+E+ + G + +
Sbjct: 227 FGTPEEVYEKPGTLFV 242
>pdb|1SFL|A Chain A, 1.9a Crystal Structure Of Staphylococcus Aureus Type I 3-
Dehydroquinase, Apo Form
pdb|1SFL|B Chain B, 1.9a Crystal Structure Of Staphylococcus Aureus Type I 3-
Dehydroquinase, Apo Form
Length = 238
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%)
Query: 69 REEIDFISLLEDEMDKFNSFFVEKEEEYIIRLKELQD 105
ID I +LE +D+F + V++ E I +LK +QD
Sbjct: 25 NHRIDAIDVLELRIDQFENVTVDQVAEMITKLKVMQD 61
>pdb|1SFJ|A Chain A, 2.4a Crystal Structure Of Staphylococcus Aureus Type I 3-
Dehydroquinase, With 3-Dehydroquinate Bound
pdb|1SFJ|B Chain B, 2.4a Crystal Structure Of Staphylococcus Aureus Type I 3-
Dehydroquinase, With 3-Dehydroquinate Bound
Length = 238
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%)
Query: 69 REEIDFISLLEDEMDKFNSFFVEKEEEYIIRLKELQD 105
ID I +LE +D+F + V++ E I +LK +QD
Sbjct: 25 NHRIDAIDVLELRIDQFENVTVDQVAEMITKLKVMQD 61
>pdb|2K3I|A Chain A, Solution Nmr Structure Of Protein Yiis From Shigella
Flexneri. Northeast Structural Genomics Consortium
Target Sfr90
Length = 109
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 84 KFNSFFVEKEE--EYIIRLKELQDRVANANDSNEELIKIRKEIVDLHGEMVL 133
KF+ FF +EE ++ +LKEL A A S +E + +I DL G++ L
Sbjct: 31 KFSRFFATREEAESFMTKLKEL----AAAASSADEGASVAYKIKDLEGQVEL 78
>pdb|4EKW|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Wild- Type, 3.2 A)
pdb|4EKW|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Wild- Type, 3.2 A)
pdb|4EKW|C Chain C, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Wild- Type, 3.2 A)
pdb|4EKW|D Chain D, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Wild- Type, 3.2 A)
Length = 285
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 28/37 (75%), Gaps = 5/37 (13%)
Query: 91 EKEEEYIIRLKELQDRVANANDSNEELIKIRKEIVDL 127
+KEE++II E+Q ++ ++ N E+IK+R+EIV+L
Sbjct: 244 QKEEQHII--DEVQ---SHEDNINNEIIKLREEIVEL 275
>pdb|3RW0|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Met221cys, 2.95 A)
pdb|3RW0|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
Channel (Met221cys, 2.95 A)
Length = 285
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 28/37 (75%), Gaps = 5/37 (13%)
Query: 91 EKEEEYIIRLKELQDRVANANDSNEELIKIRKEIVDL 127
+KEE++II E+Q ++ ++ N E+IK+R+EIV+L
Sbjct: 244 QKEEQHII--DEVQ---SHEDNINNEIIKLREEIVEL 275
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
0.316 0.136 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,768,609
Number of Sequences: 62578
Number of extensions: 297903
Number of successful extensions: 1010
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1007
Number of HSP's gapped (non-prelim): 22
length of query: 291
length of database: 14,973,337
effective HSP length: 98
effective length of query: 193
effective length of database: 8,840,693
effective search space: 1706253749
effective search space used: 1706253749
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)