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= 021244
(315 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DH3|A Chain A, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
Basis For Creb Faimly Selective Dimerization And Dna
Binding
pdb|1DH3|C Chain C, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
Basis For Creb Faimly Selective Dimerization And Dna
Binding
Length = 55
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 19/41 (46%), Positives = 30/41 (73%)
Query: 248 RRQKRMIKNRESAARSRARKQAYTNELENKVSRLEEENERL 288
+R+ R++KNRE+A SR +K+ Y LEN+V+ LE +N+ L
Sbjct: 1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTL 41
>pdb|3PV8|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed
Conformation
pdb|3PV8|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed
Conformation
pdb|3PX0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX4|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX4|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX6|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer)
In Closed Conformation
pdb|3PX6|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer)
In Closed Conformation
pdb|3THV|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed
Conformation
pdb|3THV|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed
Conformation
pdb|3TI0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed
Conformation
pdb|3TI0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed
Conformation
pdb|4DSE|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DSE|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DSF|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4DSF|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
Length = 592
Score = 30.8 bits (68), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 108 QSKSSGEKKPRDRQA-TLGEMTLEDFLV-KAGVVAEASSDKKIDGPVVGV 155
+S SS E+KP + A TL + E+ L KA +V E + D P+VG+
Sbjct: 2 ESPSSEEEKPLAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGI 51
>pdb|4DQI|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Dctp (Paired With Dg Of
Template)
pdb|4DQI|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Dctp (Paired With Dg Of
Template)
pdb|4DQP|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Ddctp (Paired With Dg Of
Template)
pdb|4DQP|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Ddctp (Paired With Dg Of
Template)
pdb|4DS4|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS4|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS5|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mg2+
pdb|4DS5|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mg2+
Length = 592
Score = 30.8 bits (68), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 108 QSKSSGEKKPRDRQA-TLGEMTLEDFLV-KAGVVAEASSDKKIDGPVVGV 155
+S SS E+KP + A TL + E+ L KA +V E + D P+VG+
Sbjct: 2 ESPSSEEEKPLAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGI 51
>pdb|4DQQ|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DQQ|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DQR|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4DQR|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4E0D|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a And Duplex Dna
Length = 592
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 108 QSKSSGEKKPRDRQA-TLGEMTLEDFLV-KAGVVAEASSDKKIDGPVVGV 155
+S SS E+KP + A TL + E+ L KA +V E + D P+VG+
Sbjct: 2 ESPSSEEEKPLAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGI 51
>pdb|3TAN|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-1) Position
pdb|3TAP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-3) Position
pdb|3TAQ|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-4) Position
pdb|3TAR|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-6) Position
pdb|4DQS|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
And Duplex Dna With Rc In Primer Terminus Paired With Dg
Of Template
Length = 592
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 108 QSKSSGEKKPRDRQA-TLGEMTLEDFLV-KAGVVAEASSDKKIDGPVVGV 155
+S SS E+KP + A TL + E+ L KA +V E + D P+VG+
Sbjct: 2 ESPSSEEEKPLAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGI 51
>pdb|2WT7|A Chain A, Crystal Structure Of The Bzip Heterodimeric Complex
Mafb:cfos Bound To Dna
Length = 63
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 30/50 (60%)
Query: 247 ERRQKRMIKNRESAARSRARKQAYTNELENKVSRLEEENERLRKQKVGFL 296
E+R+ R +N+ +AA+ R R++ T+ L+ + +LE+E L+ + L
Sbjct: 1 EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLL 50
>pdb|3A5T|A Chain A, Crystal Structure Of Mafg-Dna Complex
pdb|3A5T|B Chain B, Crystal Structure Of Mafg-Dna Complex
Length = 107
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 215 VGLTSPSMGTLSDPQLLGRKRGASEDMIEKTVERRQKRMIKNRESAARSRARKQAYTNEL 274
LT + T S +L RG S++ I + +RR R +KNR AA R ++ EL
Sbjct: 6 TSLTDEELVTXSVRELNQHLRGLSKEEIIQLKQRR--RTLKNRGYAASCRVKRVTQKEEL 63
Query: 275 ENKVSRLEEENERL 288
E + + L++E E+L
Sbjct: 64 EKQKAELQQEVEKL 77
>pdb|1FOS|E Chain E, Two Human C-Fos:c-Jun:dna Complexes
pdb|1FOS|G Chain G, Two Human C-Fos:c-Jun:dna Complexes
Length = 62
Score = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 248 RRQKRMIKNRESAARSRARKQAYTNELENKVSRLEEENERLRKQKVGFL 296
+R+ R +N+ +AA+SR R++ T+ L+ + +LE+E L+ + L
Sbjct: 1 KRRIRRERNKMAAAKSRNRRRELTDTLQAETDQLEDEKSALQTEIANLL 49
>pdb|1CI6|A Chain A, Transcription Factor Atf4-CEBP BETA BZIP HETERODIMER
Length = 63
Score = 28.5 bits (62), Expect = 4.7, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 28/44 (63%)
Query: 248 RRQKRMIKNRESAARSRARKQAYTNELENKVSRLEEENERLRKQ 291
++ K+M +N+ +A R R +K+A L + LE++NE L+++
Sbjct: 2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKER 45
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
0.314 0.130 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,275,867
Number of Sequences: 62578
Number of extensions: 247820
Number of successful extensions: 609
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 585
Number of HSP's gapped (non-prelim): 33
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)