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= 036949
(81 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CFD|L Chain L, Purple-fluorescent Antibody Ep2-25c10 In Complex With
Its Stilbene Hapten
pdb|3CFD|A Chain A, Purple-fluorescent Antibody Ep2-25c10 In Complex With
Its Stilbene Hapten
pdb|3CFE|L Chain L, Crystal Structure Of Purple-Fluorescent Antibody
Ep2-25c10
pdb|3CFE|A Chain A, Crystal Structure Of Purple-Fluorescent Antibody
Ep2-25c10
Length = 214
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 2 YTKRMFQLLMSAYS-TISTQDTALFL-GMNEDDAAYYVQQQGWTLDP 46
YT R+ + S +S + S D +L + +++DD A Y QQG TL P
Sbjct: 50 YTSRLHSGVPSRFSGSGSGTDYSLTISNLDQDDIATYFCQQGTTLPP 96
>pdb|1QQI|A Chain A, Solution Structure Of The Dna-Binding And
Transactivation Domain Of Phob From Escherichia Coli
pdb|2Z33|A Chain A, Solution Structure Of The Dna Complex Of Phob Dna-
BindingTRANSACTIVATION DOMAIN
Length = 104
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 37 VQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKMQCLTEYVFHLE 80
++ QG +LDP S + ++PL ++ P++ + L ++ H E
Sbjct: 7 IEMQGLSLDPTSHRVMAGEEPL----EMGPTEFKLLHFFMTHPE 46
>pdb|3T72|A Chain A, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|B Chain B, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|E Chain E, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|F Chain F, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|I Chain I, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|J Chain J, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|M Chain M, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|N Chain N, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|R Chain R, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|S Chain S, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|V Chain V, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|W Chain W, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|Z Chain Z, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|1 Chain 1, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|4 Chain 4, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|5 Chain 5, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|8 Chain 8, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|9 Chain 9, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|CC Chain c, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|DD Chain d, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|GG Chain g, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|HH Chain h, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|KK Chain k, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|LL Chain l, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
Length = 102
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 37 VQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKMQCLTEYVFHLE 80
++ QG +LDP S + ++PL ++ P++ + L ++ H E
Sbjct: 5 IEMQGLSLDPTSHRVMAGEEPL----EMGPTEFKLLHFFMTHPE 44
>pdb|1GXP|A Chain A, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|B Chain B, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|E Chain E, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|F Chain F, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXQ|A Chain A, Crystal Structure Of The Phob Effector Domain
Length = 106
Score = 25.8 bits (55), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 37 VQQQGWTLDPASRMLTVKKQPLVTEQKLDPSKMQCLTEYVFHLE 80
++ QG +LDP S + ++PL ++ P++ + L ++ H E
Sbjct: 9 IEMQGLSLDPTSHRVMAGEEPL----EMGPTEFKLLHFFMTHPE 48
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
0.320 0.130 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,093,287
Number of Sequences: 62578
Number of extensions: 63272
Number of successful extensions: 207
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 207
Number of HSP's gapped (non-prelim): 4
length of query: 81
length of database: 14,973,337
effective HSP length: 50
effective length of query: 31
effective length of database: 11,844,437
effective search space: 367177547
effective search space used: 367177547
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)