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= 025477
(252 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQQQVERLM 124
K+ +HNA ER RR I + SLR +P Q +K S + + +YI ++++V L
Sbjct: 4 KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYIQYMRRKVHTLQ 62
Query: 125 QKKEEL 130
Q ++L
Sbjct: 63 QDIDDL 68
>pdb|2QL2|B Chain B, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
pdb|2QL2|D Chain D, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
Length = 60
Score = 32.7 bits (73), Expect = 0.17, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 30/54 (55%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQQ 118
+++ NA ER+R +N+ +LR ++P +T+KLS T+ YI L +
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSE 55
>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 = 32.0 bits (71), Expect = 0.37, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQQQVERLM 124
K+ +HNA ER RR I + SLR +P + Q +K S + + +YI ++++
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVP-SLQGEKASRAQILDKATEYIQYMRRKNHTHQ 60
Query: 125 QKKEEL 130
Q ++L
Sbjct: 61 QDIDDL 66
>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 = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYI 113
K+ +HNA ER RR I + SLR +P Q +K S + + +YI
Sbjct: 12 KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYI 59
>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 = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYI 113
K+ +HNA ER RR I + SLR +P Q +K S + + +YI
Sbjct: 1 KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYI 48
>pdb|1NKP|A Chain A, Crystal Structure Of Myc-Max Recognizing Dna
pdb|1NKP|D Chain D, Crystal Structure Of Myc-Max Recognizing Dna
Length = 88
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 64 VKKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQQQVERL 123
VK+ HN ER RR ++ + +LR +P + +K + + YI +Q + ++L
Sbjct: 5 VKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKL 64
Query: 124 MQKKEELLSK 133
+ +E+LL K
Sbjct: 65 IS-EEDLLRK 73
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 30.4 bits (67), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATVSRVLKYI 113
K+ +HNA ER RR I + SLR +P Q +K S + + +YI
Sbjct: 3 KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYI 50
>pdb|1AN4|A Chain A, Structure And Function Of The BHLHZ DOMAIN OF USF
pdb|1AN4|B Chain B, Structure And Function Of The BHLHZ DOMAIN OF USF
Length = 65
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVA--DQTKK-LSIPATVSRVLKYIPELQQQVE 121
++ HN ER RR KIN+ L ++P + + TK S +S+ YI EL+Q
Sbjct: 5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64
Query: 122 R 122
R
Sbjct: 65 R 65
>pdb|2LFH|A Chain A, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
Human Id3 Protein, Northeast Structural Genomics
Consortium Target Hr3111a
pdb|2LFH|B Chain B, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
Human Id3 Protein, Northeast Structural Genomics
Consortium Target Hr3111a
Length = 68
Score = 28.9 bits (63), Expect = 2.6, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 80 INSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQ 117
+N YS LR L+P + +LS + RV+ YI +LQ
Sbjct: 29 MNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQ 66
>pdb|4AU2|A Chain A, Crystal Structure Of A Hsp47-Collagen Complex
pdb|4AU2|B Chain B, Crystal Structure Of A Hsp47-Collagen Complex
pdb|4AU2|C Chain C, Crystal Structure Of A Hsp47-Collagen Complex
pdb|4AU2|D Chain D, Crystal Structure Of A Hsp47-Collagen Complex
pdb|4AU4|A Chain A, Crystal Structure Of Hsp47
pdb|4AU4|B Chain B, Crystal Structure Of Hsp47
pdb|4AU4|C Chain C, Crystal Structure Of Hsp47
pdb|4AU4|D Chain D, Crystal Structure Of Hsp47
pdb|4AU4|E Chain E, Crystal Structure Of Hsp47
pdb|4AU4|F Chain F, Crystal Structure Of Hsp47
pdb|4AU4|G Chain G, Crystal Structure Of Hsp47
pdb|3ZHA|A Chain A, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|B Chain B, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|C Chain C, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|D Chain D, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|K Chain K, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|L Chain L, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|P Chain P, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition.
pdb|3ZHA|Q Chain Q, Molecular Basis For The Action Of The Collagen-Specific
Chaperone Hsp47 Serpinh1 And Its Structure-Specific
Client Recognition
Length = 392
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 192 DGLVLVNASFF-----ESFQGRVFYNLHLQVKSTYGLDCEVLNEK-LKSFYNEKREDL 243
DG +LVNA FF E F ++ N V +Y + +++ L ++Y++++E L
Sbjct: 162 DGALLVNAMFFKPHWDEKFHHKMVDNRGFMVTRSYTVGVTMMHRTGLYNYYDDEKEKL 219
>pdb|3U5V|A Chain A, Crystal Structure Of Max-E47
Length = 76
Score = 28.5 bits (62), Expect = 3.8, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 65 KKLYHNASERDRRKKINSLYSSLRSLLPVADQTKKLSIPATV-SRVLKYIPELQQQV 120
K+ +HNA ER RR+ IN + L + + ++ K + + ++ I L+QQV
Sbjct: 5 KRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQV 61
>pdb|4AYA|A Chain A, Crystal Structure Of Id2 Hlh Homodimer At 2.1a Resolution
pdb|4AYA|B Chain B, Crystal Structure Of Id2 Hlh Homodimer At 2.1a Resolution
Length = 97
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 80 INSLYSSLRSLLPVADQTKKLSIPATVSRVLKYIPELQ 117
+N YS L+ L+P Q KK+S + V+ YI +LQ
Sbjct: 40 MNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQ 77
>pdb|3L01|A Chain A, Crystal Structure Of Monomeric Glycogen Synthase From
Pyrococcus Abyssi
pdb|3L01|B Chain B, Crystal Structure Of Monomeric Glycogen Synthase From
Pyrococcus Abyssi
Length = 428
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 193 GLVLVNASFFESFQGRVFYNLHLQVKSTYGLDCEVLNEKLKSFYNEKREDLFPSNFG 249
G ++ FF +F+G++ Y + G+DC NE + ++R+ S FG
Sbjct: 198 GYLIDEWGFFRNFEGKITYVFN-------GIDCSFWNESYLTGSRDERKKSLLSKFG 247
>pdb|2BIS|A Chain A, Structure Of Glycogen Synthase From Pyrococcus Abyssi
pdb|2BIS|B Chain B, Structure Of Glycogen Synthase From Pyrococcus Abyssi
pdb|2BIS|C Chain C, Structure Of Glycogen Synthase From Pyrococcus Abyssi
Length = 440
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 193 GLVLVNASFFESFQGRVFYNLHLQVKSTYGLDCEVLNEKLKSFYNEKREDLFPSNFG 249
G ++ FF +F+G++ Y + G+DC NE + ++R+ S FG
Sbjct: 199 GYLIDEWGFFRNFEGKITYVFN-------GIDCSFWNESYLTGSRDERKKSLLSKFG 248
>pdb|3FRO|A Chain A, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
pdb|3FRO|B Chain B, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
pdb|3FRO|C Chain C, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
Length = 439
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 193 GLVLVNASFFESFQGRVFYNLHLQVKSTYGLDCEVLNEKLKSFYNEKREDLFPSNFG 249
G ++ FF +F+G++ Y + G+DC NE + ++R+ S FG
Sbjct: 198 GYLIDEWGFFRNFEGKITYVFN-------GIDCSFWNESYLTGSRDERKKSLLSKFG 247
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 60 DPTMVKKLYHNASERDRRKKINSLYSSLRSLLP 92
D K++ N SE+ RR + N L L S+LP
Sbjct: 7 DKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLP 39
>pdb|3UUX|B Chain B, Crystal Structure Of Yeast Fis1 In Complex With Mdv1
Fragment Containing N-Terminal Extension And Coiled Coil
Domains
pdb|3UUX|D Chain D, Crystal Structure Of Yeast Fis1 In Complex With Mdv1
Fragment Containing N-Terminal Extension And Coiled Coil
Domains
Length = 242
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 109 VLKYIPELQQQVERLMQKKEELLSKIS 135
L I +++ +VE L QKKE+LL KI+
Sbjct: 175 TLSEIRDIEVEVENLRQKKEKLLGKIA 201
>pdb|4H10|B Chain B, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 71
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 60 DPTMVKKLYHNASERDRRKKINSLYSSLRSLLP 92
D K++ N SE+ RR + N L L S+LP
Sbjct: 3 DKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLP 35
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
0.319 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,050,343
Number of Sequences: 62578
Number of extensions: 188344
Number of successful extensions: 540
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 522
Number of HSP's gapped (non-prelim): 26
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)