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= 007341
(607 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family
Of Plant Myb-Related Dna Binding Motifs Of The
Arabidopsis Response Regulators
Length = 64
Score = 105 bits (263), Expect = 6e-23, Method: Composition-based stats.
Identities = 47/64 (73%), Positives = 59/64 (92%)
Query: 107 TTQKKPRVVWSVELHRKFVAAVNQLGIDKAVPKKILDLMNVEKLTRENVASHLQKYRLYL 166
T QKKPRV+W+ ELH KF+AAV+ LG+++AVPKKILDLMNV+KLTRENVASHLQK+R+ L
Sbjct: 1 TAQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVAL 60
Query: 167 KRIS 170
K++S
Sbjct: 61 KKVS 64
>pdb|2QXY|A Chain A, Crystal Structure Of A Response Regulator From Thermotoga
Maritima
pdb|2QXY|B Chain B, Crystal Structure Of A Response Regulator From Thermotoga
Maritima
Length = 142
Score = 32.7 bits (73), Expect = 0.65, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 3 SVLSGNGDPKLVMKGITHGACDYLLKPVRIEEL 35
+VLS D L++ + GA DY+LKP R++ L
Sbjct: 79 AVLSAYVDKDLIINSVKAGAVDYILKPFRLDYL 111
>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas
Aeruginosa Rssb
pdb|3EQ2|B Chain B, Structure Of Hexagonal Crystal Form Of Pseudomonas
Aeruginosa Rssb
Length = 394
Score = 32.3 bits (72), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 10/85 (11%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRKKIDAKDQNNSDNQDKPH 63
VLSG G ++ + GA DYL+KP +E+L + +H VRR A D+ +++ +
Sbjct: 82 VLSGAGVXSDAVEALRLGAADYLIKP--LEDLA-VLEHSVRR----ALDRAYLRVENQRY 134
Query: 64 NGSGQAEGMGNSDQNGKLNKKRKDQ 88
+A N + LN ++DQ
Sbjct: 135 RDKLEA---ANRELQASLNLLQEDQ 156
>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas
Aeruginosa Rssb
pdb|3F7A|B Chain B, Structure Of Orthorhombic Crystal Form Of Pseudomonas
Aeruginosa Rssb
Length = 394
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 10/85 (11%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRKKIDAKDQNNSDNQDKPH 63
VLSG G ++ + GA DYL+KP +E+L + +H VRR A D+ +++ +
Sbjct: 82 VLSGAGVMSDAVEALRLGAADYLIKP--LEDLA-VLEHSVRR----ALDRAYLRVENQRY 134
Query: 64 NGSGQAEGMGNSDQNGKLNKKRKDQ 88
+A N + LN ++DQ
Sbjct: 135 RDKLEA---ANRELQASLNLLQEDQ 156
>pdb|3JTE|A Chain A, Crystal Structure Of Response Regulator Receiver Domain
Protein From Clostridium Thermocellum
Length = 143
Score = 32.0 bits (71), Expect = 1.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRKKI 48
+L+G+GD + + GA +YL KPV ++L + + RKK+
Sbjct: 82 ILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRKKL 126
>pdb|1ZY2|A Chain A, Crystal Structure Of The Phosphorylated Receiver Domain Of
The Transcription Regulator Ntrc1 From Aquifex Aeolicus
pdb|1ZY2|B Chain B, Crystal Structure Of The Phosphorylated Receiver Domain Of
The Transcription Regulator Ntrc1 From Aquifex Aeolicus
Length = 150
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 29/50 (58%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRKKIDAKDQ 53
V++G+G K ++ + GA D+L KP +EE++ + +K+ +++
Sbjct: 77 VITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHRKLRKENE 126
>pdb|1NY5|A Chain A, Crystal Structure Of Sigm54 Activator (Aaa+ Atpase) In The
Inactive State
pdb|1NY5|B Chain B, Crystal Structure Of Sigm54 Activator (Aaa+ Atpase) In The
Inactive State
Length = 387
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRKKIDAKDQNNSDNQD 60
V++G+G K ++ + GA D+L KP +EE++ + +K+ +++ +D
Sbjct: 77 VITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHRKLRKENELLRREKD 133
>pdb|1P6U|A Chain A, Nmr Structure Of The Bef3-Activated Structure Of The
Response Regulator Chey2-Mg2+ From Sinorhizobium
Meliloti
pdb|1P6Q|A Chain A, Nmr Structure Of The Response Regulator Chey2 From
Sinorhizobium Meliloti, Complexed With Mg++
Length = 129
Score = 30.8 bits (68), Expect = 2.4, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 2 FSVLSGNGDPKLVMKGITHGACDYLLKPVRIEELK 36
F +L+ GD LV K GA + L KP IE++K
Sbjct: 84 FIILTAQGDRALVQKAAALGANNVLAKPFTIEKMK 118
>pdb|3NNN|A Chain A, Bef3 Activated Drrd Receiver Domain
pdb|3NNN|B Chain B, Bef3 Activated Drrd Receiver Domain
Length = 122
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 4 VLSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRK 46
+L+ D + +KG+ GA DYL KP + EL + ++RRK
Sbjct: 79 MLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRK 121
>pdb|1KGS|A Chain A, Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG FROM
THERMOTOGA Maritima
Length = 225
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%)
Query: 5 LSGNGDPKLVMKGITHGACDYLLKPVRIEELKNIWQHVVRRK 46
L+ D + +KG+ GA DYL KP + EL + ++RRK
Sbjct: 80 LTALSDVEYRVKGLNXGADDYLPKPFDLRELIARVRALIRRK 121
>pdb|3GZX|A Chain A, Crystal Structure Of The Biphenyl Dioxygenase In Complex
With Biphenyl From Comamonas Testosteroni Sp. Strain
B-356
pdb|3GZY|A Chain A, Crystal Structure Of The Biphenyl Dioxygenase From
Comamonas Testosteroni Sp. Strain B-356
Length = 457
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 271 SHSGNILQGMPTSLELDQLQLNKN 294
SH +L G+P ++L Q+QL+KN
Sbjct: 238 SHLSGVLAGLPPEMDLTQIQLSKN 261
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
0.315 0.131 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,341,698
Number of Sequences: 62578
Number of extensions: 700884
Number of successful extensions: 1477
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1468
Number of HSP's gapped (non-prelim): 13
length of query: 607
length of database: 14,973,337
effective HSP length: 104
effective length of query: 503
effective length of database: 8,465,225
effective search space: 4258008175
effective search space used: 4258008175
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: 54 (25.4 bits)