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= 013329
(445 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.4 bits (80), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELLNLWTHMWRR 41
+S +S V+ LRLGAADYL+KPL E L + H RR
Sbjct: 83 LSGAGVMSDAVEALRLGAADYLIKPL---EDLAVLEHSVRR 120
>pdb|3Q9S|A Chain A, Crystal Structure Of Rra(1-215) From Deinococcus
Radiodurans
Length = 249
Score = 35.0 bits (79), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 22/32 (68%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELL 32
++A+D V V+ L LGA DYL+KP +ELL
Sbjct: 114 LTARDTVEEKVRLLGLGADDYLIKPFHPDELL 145
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELLNLWTHMWRR 41
+S S V+ LRLGAADYL+KPL E L + H RR
Sbjct: 83 LSGAGVXSDAVEALRLGAADYLIKPL---EDLAVLEHSVRR 120
>pdb|2PYX|A Chain A, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
From Shewanella Frigidimarina Ncimb 400 At 1.50 A
Resolution
pdb|2PYX|B Chain B, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
From Shewanella Frigidimarina Ncimb 400 At 1.50 A
Resolution
Length = 526
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 54/133 (40%), Gaps = 22/133 (16%)
Query: 158 AFFTYVKSNMPRDSSPRIVNVDDSAAQNVRMEEKCQPCCQQVVSDTRIHENGEAWENYSQ 217
A + S + + P D +A R+ E+ Q QQ++ ++H +
Sbjct: 366 ALIEWTASTLAQQLPPNRXVXDTISA---RVNERYQQHWQQIIDFLKLHYVISQRQEDRY 422
Query: 218 GEDFRSSSSVPDS----LSMERSSTPPTDFPQNRNFKDEKFFQPQMPPTRNEPPQATYQY 273
D R S+S+PDS L + R TP Q+ ++K+ F P A++QY
Sbjct: 423 WRDHRESNSIPDSLQAXLELWRYQTPSQ---QDISYKEALF------------PAASFQY 467
Query: 274 YMSGAMNQVMLPS 286
+ G LP+
Sbjct: 468 VLYGXSFNTQLPT 480
>pdb|1YS6|A Chain A, Crystal Structure Of The Response Regulatory Protein Prra
From Mycobacterium Tuberculosis
pdb|1YS6|B Chain B, Crystal Structure Of The Response Regulatory Protein Prra
From Mycobacterium Tuberculosis
pdb|1YS7|A Chain A, Crystal Structure Of The Response Regulator Protein Prra
Comlexed With Mg2+
pdb|1YS7|B Chain B, Crystal Structure Of The Response Regulator Protein Prra
Comlexed With Mg2+
Length = 233
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 22/42 (52%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELLNLWTHMWRRR 42
+SA+ V V L GA DYLVKP EL+ + RRR
Sbjct: 85 LSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR 126
>pdb|3NNN|A Chain A, Bef3 Activated Drrd Receiver Domain
pdb|3NNN|B Chain B, Bef3 Activated Drrd Receiver Domain
Length = 122
Score = 30.4 bits (67), Expect = 2.0, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 23/42 (54%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELLNLWTHMWRRR 42
++A +V VK L +GA DYL KP EL+ + RR+
Sbjct: 80 LTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRK 121
>pdb|3T6K|A Chain A, Crystal Structure Of A Hypothetical Response Regulator
(Caur_3799) From Chloroflexus Aurantiacus J-10-Fl At
1.86 A Resolution
pdb|3T6K|B Chain B, Crystal Structure Of A Hypothetical Response Regulator
(Caur_3799) From Chloroflexus Aurantiacus J-10-Fl At
1.86 A Resolution
Length = 136
Score = 29.3 bits (64), Expect = 5.2, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELL 32
++AQ ++S + GA DYL KP EL+
Sbjct: 84 LTAQGDISAKIAGFEAGANDYLAKPFEPQELV 115
>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 = 28.9 bits (63), Expect = 5.8, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 1 MSAQDEVSVVVKCLRLGAADYLVKPLRTNELL 32
+SA + +++ ++ GA DY++KP R + LL
Sbjct: 81 LSAYVDKDLIINSVKAGAVDYILKPFRLDYLL 112
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 0.130 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,689,338
Number of Sequences: 62578
Number of extensions: 434303
Number of successful extensions: 857
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 850
Number of HSP's gapped (non-prelim): 9
length of query: 445
length of database: 14,973,337
effective HSP length: 102
effective length of query: 343
effective length of database: 8,590,381
effective search space: 2946500683
effective search space used: 2946500683
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: 53 (25.0 bits)