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= 034435
(95 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 85.5 bits (210), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 40/50 (80%), Positives = 44/50 (88%)
Query: 24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
+ REQD YLPIAN++RIMK A+P GKIAKDAKE VQECVSEFISFITSE
Sbjct: 2 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 51
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 85.5 bits (210), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 40/50 (80%), Positives = 44/50 (88%)
Query: 24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
+ REQD YLPIAN++RIMK A+P GKIAKDAKE VQECVSEFISFITSE
Sbjct: 1 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 50
>pdb|4G91|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans
pdb|4G92|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
Length = 92
Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/49 (77%), Positives = 45/49 (91%)
Query: 25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
++EQDR+LPIAN++RIMK ALP N KIAK+AKE +QECVSEFISFITSE
Sbjct: 1 MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSE 49
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 17 GEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYD 75
G S+ + D +P A I++++K+ LP N ++A DA+E V C +EFI I+SE +
Sbjct: 1 GPHMASSSGNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEAN 58
>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYK|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
Length = 128
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 29/47 (61%)
Query: 26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITS 72
R +D LP A I R++K+ALP + ++K+A+ + S F F+TS
Sbjct: 4 RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTS 50
>pdb|1BRT|A Chain A, Bromoperoxidase A2 Mutant M99t
Length = 277
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 29 DRYLPIANISRIMKKALPA 47
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|1BRO|A Chain A, Bromoperoxidase A2
pdb|1BRO|B Chain B, Bromoperoxidase A2
Length = 277
Score = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 29 DRYLPIANISRIMKKALPA 47
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|1A7U|A Chain A, Chloroperoxidase T
pdb|1A7U|B Chain B, Chloroperoxidase T
pdb|1A8U|A Chain A, Chloroperoxidase TBENZOATE COMPLEX
pdb|1A8U|B Chain B, Chloroperoxidase TBENZOATE COMPLEX
Length = 277
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 29 DRYLPIANISRIMKKALPA 47
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|3VDX|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|D Chain D, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|E Chain E, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|F Chain F, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|G Chain G, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|H Chain H, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|I Chain I, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|J Chain J, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|K Chain K, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|L Chain L, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
Length = 456
Score = 28.9 bits (63), Expect = 0.81, Method: Composition-based stats.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 29 DRYLPIANISRIMKKALPA 47
DR LPI N +R+ KALP+
Sbjct: 229 DRTLPIENTARVFHKALPS 247
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
0.312 0.128 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,648,180
Number of Sequences: 62578
Number of extensions: 45057
Number of successful extensions: 100
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 91
Number of HSP's gapped (non-prelim): 9
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)