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= 029765
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GZX|B Chain B, Crystal Structure Of The Biphenyl Dioxygenase In Complex
With Biphenyl From Comamonas Testosteroni Sp. Strain
B-356
pdb|3GZY|B Chain B, Crystal Structure Of The Biphenyl Dioxygenase From
Comamonas Testosteroni Sp. Strain B-356
Length = 186
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 100 RSPQIEIHEMGSALEVVLTTGLDFQFMFIETIRLLHEEGVEIV----NASFNVVEDTIFH 155
R Q+ H A +L + + +M I T+R E+G+E V NA F+ T++
Sbjct: 31 REAQLLDHHAFQAWFALLAEDIHY-WMPIRTVRTAREQGLEYVPAGANAHFDDTHATMYG 89
Query: 156 TIHSKIGDSGSDHDASAR 173
I K D D +R
Sbjct: 90 RIRQKTSDLNWAEDPPSR 107
>pdb|1A0A|A Chain A, Phosphate System Positive Regulatory Protein Pho4DNA
Complex
pdb|1A0A|B Chain B, Phosphate System Positive Regulatory Protein Pho4DNA
Complex
Length = 63
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 9 RTDRKTIERNRRNQMKALYSTLNSIVP----HQRPMEATSLPDQLDEATKYIKRLQTN 62
R K E+ RRN++ L S++P Q A S ++ A +YI+ LQ N
Sbjct: 3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN 60
>pdb|1R05|A Chain A, Solution Structure Of Max B-Hlh-Lz
pdb|1R05|B Chain B, Solution Structure Of Max B-Hlh-Lz
Length = 87
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 6 SSSRTDRKTIERNRRNQMKALYSTLNSIVPHQRPMEATSLPDQLDEATKYIKRLQTNLER 65
+ R +ER RR+ +K + +L VP + E S LD+AT+YI+ ++ +
Sbjct: 2 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQG-EKASRAQILDKATEYIQYMRRKVHT 60
Query: 66 MKE 68
+++
Sbjct: 61 LQQ 63
>pdb|1W8J|A Chain A, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|B Chain B, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|C Chain C, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|D Chain D, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
Length = 766
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 7 SSRTDRKTIERNRRNQMKALYSTLNSIVPH 36
+S+ +KT+ RN + L TLN+ PH
Sbjct: 628 TSKEHKKTVGHQFRNSLHLLMETLNATTPH 657
>pdb|1NKP|B Chain B, Crystal Structure Of Myc-Max Recognizing Dna
pdb|1NKP|E Chain E, Crystal Structure Of Myc-Max Recognizing Dna
Length = 83
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 9 RTDRKTIERNRRNQMKALYSTLNSIVPHQRPMEATSLPDQLDEATKYIK 57
R +ER RR+ +K + +L VP + E S LD+AT+YI+
Sbjct: 3 RAHHNALERKRRDHIKDSFHSLRDSVPSLQG-EKASRAQILDKATEYIQ 50
>pdb|1TV7|A Chain A, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV7|B Chain B, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV8|A Chain A, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|1TV8|B Chain B, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|2FB3|A Chain A, Structure Of Moaa In Complex With 5'-Gtp
pdb|2FB3|B Chain B, Structure Of Moaa In Complex With 5'-Gtp
Length = 340
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 8/27 (29%), Positives = 20/27 (74%)
Query: 134 LHEEGVEIVNASFNVVEDTIFHTIHSK 160
L++ G+ +N S + ++DT+F +I+++
Sbjct: 115 LYDAGLRRINVSLDAIDDTLFQSINNR 141
>pdb|2FB2|A Chain A, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
pdb|2FB2|B Chain B, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
Length = 340
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 8/27 (29%), Positives = 20/27 (74%)
Query: 134 LHEEGVEIVNASFNVVEDTIFHTIHSK 160
L++ G+ +N S + ++DT+F +I+++
Sbjct: 115 LYDAGLRRINVSLDAIDDTLFQSINNR 141
>pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Human Max-Dna
Complex: New Insights Into Mechanisms Of
Transcriptional Control
pdb|1HLO|B Chain B, The Crystal Structure Of An Intact Human Max-Dna
Complex: New Insights Into Mechanisms Of
Transcriptional Control
Length = 80
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 6 SSSRTDRKTIERNRRNQMKALYSTLNSIVPHQRPMEATSLPDQLDEATKYIK 57
+ R +ER RR+ +K + +L VP E S LD+AT+YI+
Sbjct: 10 ADKRAHHNALERKRRDHIKDSFHSLRDSVP-SLQGEKASRAQILDKATEYIQ 60
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 6 SSSRTDRKTIERNRRNQMKALYSTLNSIVPHQRPMEATSLPDQLDEATKYIK 57
+ R +ER RR+ +K + +L VP + E S LD+AT+YI+
Sbjct: 1 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQG-EKASRAQILDKATEYIQ 51
>pdb|1NLW|B Chain B, Crystal Structure Of Mad-Max Recognizing Dna
pdb|1NLW|E Chain E, Crystal Structure Of Mad-Max Recognizing Dna
Length = 76
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 9 RTDRKTIERNRRNQMKALYSTLNSIVPHQRPMEATSLPDQLDEATKYIK 57
R +ER RR+ +K + +L VP + E S LD+AT+YI+
Sbjct: 2 RAHHNALERKRRDHIKDSFHSLRDSVPSLQG-EKASRAQILDKATEYIQ 49
>pdb|1OE9|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain - Nucleotide-Free
pdb|1W7I|A Chain A, Crystal Structure Of Myosin V Motor Without Nucleotide
Soaked In 10 Mm Mgadp
pdb|1W7J|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain + Adp-Befx - Near Rigor
Length = 795
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 7 SSRTDRKTIERNRRNQMKALYSTLNSIVPH 36
+S+ +KT+ RN + L TLN+ PH
Sbjct: 628 TSKEHKKTVGHQFRNSLHLLMETLNATTPH 657
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 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,463,477
Number of Sequences: 62578
Number of extensions: 142428
Number of successful extensions: 444
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 436
Number of HSP's gapped (non-prelim): 15
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
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: 48 (23.1 bits)