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= 021208
(316 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 = 35.4 bits (80), Expect = 0.040, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLK--KMDKASVLGDAIKYLKQLQEKVKILEE 200
H ERKRR+ + F +L VP L+ K +A +L A +Y++ ++ KV L++
Sbjct: 8 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQ 63
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 34.3 bits (77), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 32/45 (71%), Gaps = 1/45 (2%)
Query: 150 AERKRREKLSQRFIALSAIVPG-LKKMDKASVLGDAIKYLKQLQE 193
+E+KRR++ + L +++PG +KMDK++VL +I +L++ +E
Sbjct: 19 SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKE 63
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 140 RLSNTQD-HIIAERKRREKLSQRFIALSAIVPGL----KKMDKASVLGDAIKYLKQLQEK 194
R+ N ++ H E++RR+K++ L+++VP +K+DK +VL A++++K L+
Sbjct: 9 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA 68
Query: 195 VKILEEQANKKTIES 209
E K T S
Sbjct: 69 TNPYTEANYKPTFLS 83
>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 = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
Query: 150 AERKRREKLSQRFIALSAIVPG-LKKMDKASVLGDAIKYLKQLQEKVKILE 199
+E+KRR++ + L +++PG +KMDK++VL +I +L++ +E LE
Sbjct: 15 SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE 65
>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 73
Score = 32.0 bits (71), Expect = 0.42, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 37/58 (63%), Gaps = 5/58 (8%)
Query: 140 RLSNTQD-HIIAERKRREKLSQRFIALSAIVPGL----KKMDKASVLGDAIKYLKQLQ 192
R+ N ++ H E++RR+K++ L+++VP +K+DK +VL A++++K L+
Sbjct: 5 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|1AMU|A Chain A, Phenylalanine Activating Domain Of Gramicidin Synthetase 1
In A Complex With Amp And Phenylalanine
pdb|1AMU|B Chain B, Phenylalanine Activating Domain Of Gramicidin Synthetase 1
In A Complex With Amp And Phenylalanine
Length = 563
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 9/80 (11%)
Query: 153 KRREKLSQRFIALSAIVPG---LKKMDKASVLGDA-IKYLKQLQEKVKILEEQANKKTIE 208
KR E SQ+F+ + VPG K D+A L D I+YL ++ +VKI + + +E
Sbjct: 388 KRPELTSQKFVD-NPFVPGEKLYKTGDQARWLSDGNIEYLGRIDNQVKIRGHRVELEEVE 446
Query: 209 SVV----FVNKTQLSDEGDN 224
S++ ++++T +S D+
Sbjct: 447 SILLKHMYISETAVSVHKDH 466
>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 = 31.6 bits (70), Expect = 0.63, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLK--KMDKASVLGDAIKYLKQLQEK 194
H ERKRR+ + F +L VP L+ K +A +L A +Y++ ++ K
Sbjct: 6 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 55
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLK--KMDKASVLGDAIKYLKQLQEK 194
H ERKRR+ + F +L VP L+ K +A +L A +Y++ ++ K
Sbjct: 7 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 56
>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 = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLK--KMDKASVLGDAIKYLKQLQEK 194
H ERKRR+ + F +L VP L+ K +A +L A +Y++ ++ K
Sbjct: 5 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 54
>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 = 30.4 bits (67), Expect = 1.3, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLK--KMDKASVLGDAIKYLKQLQEK 194
H ERKRR+ + F +L VP L+ K +A +L A +Y++ ++ K
Sbjct: 16 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 65
>pdb|2W00|A Chain A, Crystal Structure Of The Hsdr Subunit Of The Ecor124i
Restriction Enzyme In Complex With Atp
pdb|2W00|B Chain B, Crystal Structure Of The Hsdr Subunit Of The Ecor124i
Restriction Enzyme In Complex With Atp
Length = 1038
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 47/97 (48%), Gaps = 14/97 (14%)
Query: 176 DKASVLGDAIKYLKQLQEK---VKILEEQANKKTIESVVFVNKTQLSDEGDNPNGA-FNE 231
DKAS++ + ++ Q++ I EE N+ + + +T L E NG NE
Sbjct: 945 DKASIIDAFFTFAQREQQREAEALIKEENLNEDAAKRYI---RTSLKREYATENGTELNE 1001
Query: 232 ALPEIEARFCDKSVLIRVHCEKRKGVFEKIVAEIEKL 268
LP++ S L + K++ VF+KIV+ IEK
Sbjct: 1002 TLPKL-------SPLNPQYKTKKQAVFQKIVSFIEKF 1031
>pdb|2Y8P|A Chain A, Crystal Structure Of An Outer Membrane-Anchored Endolytic
Peptidoglycan Lytic Transglycosylase (Mlte) From
Escherichia Coli
pdb|2Y8P|B Chain B, Crystal Structure Of An Outer Membrane-Anchored Endolytic
Peptidoglycan Lytic Transglycosylase (Mlte) From
Escherichia Coli
Length = 194
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 17/72 (23%)
Query: 45 LQHSYTHPSFNNNTGIDR-----PQKQLKTSTWN----------SSETGFNPNNVSSINM 89
++H YT+P +N + R P Q + W + E+G NPN VS
Sbjct: 1 MKHDYTNPPWNAKVPVQRAMQWMPISQKAGAAWGVDPQLITAIIAIESGGNPNAVS--KS 58
Query: 90 NQMGILKPKQET 101
N +G+++ K T
Sbjct: 59 NAIGLMQLKAST 70
>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 = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 147 HIIAERKRREKLSQRFIALSAIVPGLKKMDKAS---VLGDAIKYLKQLQ-EKVKILEEQ 201
H + ER+RR +L + F AL +P L+ +KA +L A Y+ +Q E+ K++ E+
Sbjct: 10 HNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEE 68
>pdb|4HJY|A Chain A, 2.4 A Crystal Structure Of E. Coli Mlte-E64q With Bound
Chitopentaose
pdb|4HJY|B Chain B, 2.4 A Crystal Structure Of E. Coli Mlte-E64q With Bound
Chitopentaose
pdb|4HJZ|A Chain A, 1.9 A Crystal Structure Of E. Coli Mlte-E64q With Bound
Chitopentaose
pdb|4HJZ|B Chain B, 1.9 A Crystal Structure Of E. Coli Mlte-E64q With Bound
Chitopentaose
Length = 206
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 23/81 (28%)
Query: 42 GENL------QHSYTHPSFNNNTGIDR-----PQKQLKTSTWN----------SSETGFN 80
GENL +H YT+P +N + R P Q + W + ++G N
Sbjct: 12 GENLYFQGSSKHDYTNPPWNAKVPVQRAMQWMPISQKAGAAWGVDPQLITAIIAIQSGGN 71
Query: 81 PNNVSSINMNQMGILKPKQET 101
PN VS N +G+++ K T
Sbjct: 72 PNAVS--KSNAIGLMQLKAST 90
>pdb|3T36|A Chain A, Crystal Structure Of Lytic Transglycosylase Mlte From
Eschericha Coli
pdb|3T36|B Chain B, Crystal Structure Of Lytic Transglycosylase Mlte From
Eschericha Coli
pdb|3T36|C Chain C, Crystal Structure Of Lytic Transglycosylase Mlte From
Eschericha Coli
pdb|3T36|D Chain D, Crystal Structure Of Lytic Transglycosylase Mlte From
Eschericha Coli
pdb|3T36|E Chain E, Crystal Structure Of Lytic Transglycosylase Mlte From
Eschericha Coli
pdb|4HJV|A Chain A, Crystal Structure Of E. Coli Mlte With Bound Bulgecin And
Murodipeptide
pdb|4HJV|B Chain B, Crystal Structure Of E. Coli Mlte With Bound Bulgecin And
Murodipeptide
pdb|4HJV|C Chain C, Crystal Structure Of E. Coli Mlte With Bound Bulgecin And
Murodipeptide
pdb|4HJV|D Chain D, Crystal Structure Of E. Coli Mlte With Bound Bulgecin And
Murodipeptide
pdb|4HJV|E Chain E, Crystal Structure Of E. Coli Mlte With Bound Bulgecin And
Murodipeptide
Length = 203
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 17/71 (23%)
Query: 46 QHSYTHPSFNNNTGIDR-----PQKQLKTSTWN----------SSETGFNPNNVSSINMN 90
+H YT+P +N + R P Q + W + E+G NPN VS N
Sbjct: 19 KHDYTNPPWNAKVPVQRAMQWMPISQKAGAAWGVDPQLITAIIAIESGGNPNAVS--KSN 76
Query: 91 QMGILKPKQET 101
+G+++ K T
Sbjct: 77 AIGLMQLKAST 87
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 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,033,334
Number of Sequences: 62578
Number of extensions: 369388
Number of successful extensions: 1167
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1163
Number of HSP's gapped (non-prelim): 23
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
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)