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= 014477
(424 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 207 EVES---QRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFV 258
EVES +R H A+ER RR + + LR +P ++ +A I+ A E++
Sbjct: 5 EVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 59
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 32.0 bits (71), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 40/59 (67%), Gaps = 1/59 (1%)
Query: 201 AIKTTEEVESQRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFVR 259
A++ ++ +++R++ E+ RR Q N ++ L S++PG+ ++ D+++++ +I+F+R
Sbjct: 2 AVEEDDKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGN-ARKMDKSTVLQKSIDFLR 59
>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 = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 35/51 (68%), Gaps = 1/51 (1%)
Query: 209 ESQRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFVR 259
+++R++ E+ RR Q N ++ L S++PG+ ++ D+++++ +I+F+R
Sbjct: 6 KAKRVSRNKSEKKRRDQFNVLIKELGSMLPGN-ARKMDKSTVLQKSIDFLR 55
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 211 QRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFV 258
+R H A+ER RR + + LR +P ++ +A I+ A E++
Sbjct: 3 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 50
>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 = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 211 QRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFV 258
+R H A+ER RR + + LR +P ++ +A I+ A E++
Sbjct: 1 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 48
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 211 QRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFV 258
+R H A+ER RR + + LR +P ++ +A I+ A E++
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 49
>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 = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 211 QRMTHIAVERNRRKQMNEHLRVLRSLMPGSYVQRGDQASIIGGAIEFV 258
+R H A+ER RR + + LR +P ++ +A I+ A E++
Sbjct: 4 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 51
>pdb|3LNL|A Chain A, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
pdb|3LNL|B Chain B, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
Length = 370
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 347 LDAMIKILSRRRPGQLIKAIAALEDLQFNILHTNITTIEQTVLYSFNVKVASETRFTADD 406
++ MI + R QLIK E F+ + I+QT LY V + + T +D
Sbjct: 202 IEFMIDAYQKSRAEQLIKQYHPYETPVFDFIE-----IKQTSLYGLGVMAEVDNQMTLED 256
Query: 407 IASSVQ 412
A+ ++
Sbjct: 257 FAADIK 262
>pdb|2NYD|A Chain A, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
pdb|2NYD|B Chain B, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
Length = 370
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 347 LDAMIKILSRRRPGQLIKAIAALEDLQFNILHTNITTIEQTVLYSFNVKVASETRFTADD 406
++ MI + R QLIK E F+ + I+QT LY V + + T +D
Sbjct: 202 IEFMIDAYQKSRAEQLIKQYHPYETPVFDFIE-----IKQTSLYGLGVMAEVDNQMTLED 256
Query: 407 IASSVQ 412
A+ ++
Sbjct: 257 FAADIK 262
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 0.132 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,280,149
Number of Sequences: 62578
Number of extensions: 370556
Number of successful extensions: 847
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 841
Number of HSP's gapped (non-prelim): 17
length of query: 424
length of database: 14,973,337
effective HSP length: 101
effective length of query: 323
effective length of database: 8,652,959
effective search space: 2794905757
effective search space used: 2794905757
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)