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= 045382
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CF7|A Chain A, Structural Basis Of Dna Recognition By The Heterodimeric
Cell Cycle Transcription Factor E2f-Dp
Length = 76
Score = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 35/71 (49%), Positives = 48/71 (67%), Gaps = 5/71 (7%)
Query: 108 SRKQKSLGLLCSNFLSLYN--RDGVESIGLDDAASKLGV-ERRRIYDIVNVLESVGVLTR 164
SR +KSLGLL + F+SL +DGV + L AA L V ++RRIYDI NVLE +G++ +
Sbjct: 6 SRHEKSLGLLTTKFVSLLQEAKDGVLDLKL--AADTLAVRQKRRIYDITNVLEGIGLIEK 63
Query: 165 RAKNKYTWKGF 175
++KN WKG
Sbjct: 64 KSKNSIQWKGV 74
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 137 DAASKLGVE---RRRIYDIVNVLESVGVLTRRAKNK 169
+ KLGVE +RR+ DI+N L+ VG+LT + N+
Sbjct: 317 NICKKLGVEAVTQRRVSDIINELDMVGILTAKVVNR 352
>pdb|2FNC|A Chain A, Thermotoga Maritima Maltotriose Binding Protein Bound With
Maltotriose
Length = 381
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 10/108 (9%)
Query: 57 LAGGVEGNGNEIRVGSLYKVTYSSLKSFTETMPQSSSSTKVQDPSSRHYAYSRKQKSLGL 116
L +G G +I VG+ V ++ E +P S D + + ++Y K +
Sbjct: 45 LTAAPQGQGADIIVGAHDWVGELAVNGLIEPIPNFSDLKNFYDTALKAFSYGGKLYGVPY 104
Query: 117 LCSNFLSLYNRDGVESIG--LDDAASKL--------GVERRRIYDIVN 154
+YN+D V+S+ +D+ K G R IYD+ N
Sbjct: 105 AMEAVALIYNKDYVDSVPKTMDELIEKAKQIDEEYGGEVRGFIYDVAN 152
>pdb|3Q9L|A Chain A, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3Q9L|B Chain B, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3R9I|A Chain A, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|B Chain B, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|C Chain C, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|D Chain D, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9J|A Chain A, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
pdb|3R9J|B Chain B, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
Length = 260
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 132 SIGLDDAASKLGVERRRIYDIVNVLESVGVLT------RRAKNKYTW 172
+IGL + +G ERR +YD VNV++ L +R +N Y
Sbjct: 40 AIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRTENLYIL 86
>pdb|1CF7|B Chain B, Structural Basis Of Dna Recognition By The Heterodimeric
Cell Cycle Transcription Factor E2f-Dp
Length = 95
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 146 RRRIYDIVNVLESVGVLTRRAKNKYTWKGF 175
RRR+YD +NVL ++ ++++ K + W G
Sbjct: 61 RRRVYDALNVLMAMNIISKEKK-EIKWIGL 89
>pdb|2VPW|A Chain A, Polysulfide Reductase With Bound Menaquinone
pdb|2VPW|E Chain E, Polysulfide Reductase With Bound Menaquinone
pdb|2VPX|A Chain A, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPX|E Chain E, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPY|A Chain A, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPY|E Chain E, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPZ|A Chain A, Polysulfide Reductase Native Structure
pdb|2VPZ|E Chain E, Polysulfide Reductase Native Structure
Length = 765
Score = 27.3 bits (59), Expect = 5.8, Method: Composition-based stats.
Identities = 15/59 (25%), Positives = 28/59 (47%)
Query: 73 LYKVTYSSLKSFTETMPQSSSSTKVQDPSSRHYAYSRKQKSLGLLCSNFLSLYNRDGVE 131
Y++ Y T Q++ DP + + + + K LGL +++ L N+DGV+
Sbjct: 618 FYRLLYGRSPVHTFARTQNNWVLMEMDPENEVWIHKEEAKRLGLKEGDYVMLVNQDGVK 676
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
0.318 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,468,265
Number of Sequences: 62578
Number of extensions: 209649
Number of successful extensions: 475
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 6
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)