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= 007868
(586 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2AJE|A Chain A, Solution Structure Of The Arabidopsis Thaliana Telomeric
Repeat-Binding Protein Dna Binding Domain
Length = 105
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 31/48 (64%)
Query: 522 RRKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
+R+ R ++++EV LV+ V K G GRW ++K AF +RT VDLK
Sbjct: 9 QRRIRRPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLK 56
>pdb|2ROH|A Chain A, The Dna Binding Domain Of Rtbp1
Length = 122
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 22/48 (45%), Positives = 31/48 (64%)
Query: 522 RRKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
+R+ R +T++EV LVE V G GRW ++K AF + +RT VDLK
Sbjct: 27 QRRIRRPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLK 74
>pdb|2QHB|A Chain A, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
pdb|2QHB|B Chain B, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
Length = 86
Score = 45.4 bits (106), Expect = 9e-05, Method: Composition-based stats.
Identities = 21/47 (44%), Positives = 30/47 (63%)
Query: 523 RKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
R+ R ++++EV LVE V G GRW ++K AF + +RT VDLK
Sbjct: 1 RRIRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLK 47
>pdb|2JUH|A Chain A, Solution Structure Of Dna Binding Domain Of Ngtrf1
Length = 121
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 31/48 (64%)
Query: 522 RRKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
+R+ R ++++EV LVE V G GRW ++K AF + +RT VDLK
Sbjct: 13 QRRIRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLK 60
>pdb|2CKX|A Chain A, Crystal Structure Of Ngtrf1, Double-Stranded Telomeric
Repeat Binding Factor From Nicotiana Tabacum
Length = 83
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 527 RAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
R ++++EV LVE V G GRW ++K AF + +RT VDLK
Sbjct: 1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLK 43
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1, Nmr,
18 Structures
Length = 53
Score = 34.7 bits (78), Expect = 0.13, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 524 KHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
+ +AW E L GV KYG G WS+I L ++ RTSV LK
Sbjct: 1 RKRQAWLWEEDKNLRSGVRKYGEGNWSKI--LLHYKFNNRTSVMLK 44
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 522 RRKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
R + +AW E L GV KYG G WS+I L ++ RTSV LK
Sbjct: 7 RARKRQAWLWEEDKNLRSGVRKYGEGNWSKI--LLHYKFNNRTSVMLK 52
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human Trf1
Length = 69
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 522 RRKHHRAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
R + +AW E L GV KYG G WS+I L ++ RTSV LK
Sbjct: 6 RARKRQAWLWEEDKNLRSGVRKYGEGNWSKI--LLHYKFNNRTSVMLK 51
>pdb|1W0T|A Chain A, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0T|B Chain B, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna
Length = 53
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 527 RAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSYRTSVDLK 569
+AW E L GV KYG G WS+I L ++ RTSV LK
Sbjct: 3 QAWLWEEDKNLRSGVRKYGEGNWSKI--LLHYKFNNRTSVMLK 43
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 529 WTLSEVMKLVEGVSKYGAGRWSEIKRLAF 557
WT E KL+ GV KYG G W++I+ F
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQIRDDPF 200
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 32.3 bits (72), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 529 WTLSEVMKLVEGVSKYGAGRWSEIKRLAF 557
WT E KL+ GV KYG G W++I+ F
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQIRDDPF 199
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 31.2 bits (69), Expect = 1.8, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 529 WTLSEVMKLVEGVSKYGAGRWSEIKR 554
WT E +++E V KYG RWS+I +
Sbjct: 30 WTKEEDQRVIEHVQKYGPKRWSDIAK 55
>pdb|1MBG|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
pdb|1MBH|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
Length = 53
Score = 29.3 bits (64), Expect = 6.4, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 529 WTLSEVMKLVEGVSKYGAGRWSEIKR 554
WT E +++E V KYG RWS I +
Sbjct: 6 WTKEEDQRVIELVQKYGPKRWSVIAK 31
>pdb|2NXQ|A Chain A, Crystal Structure Of Calcium Binding Protein 1 From
Entamoeba Histolytica: A Novel Arrangement Of Ef Hand
Motifs
pdb|2NXQ|B Chain B, Crystal Structure Of Calcium Binding Protein 1 From
Entamoeba Histolytica: A Novel Arrangement Of Ef Hand
Motifs
pdb|3PX1|A Chain A, Structure Of Calcium Binding Protein-1 From Entamoeba
Histolytica In Complex With Strontium
pdb|3PX1|B Chain B, Structure Of Calcium Binding Protein-1 From Entamoeba
Histolytica In Complex With Strontium
pdb|3QJK|A Chain A, Structure Of Calcium Binding Protein-1 From Entamoeba
Histolytica In Complex With Lead
pdb|3QJK|B Chain B, Structure Of Calcium Binding Protein-1 From Entamoeba
Histolytica In Complex With Lead
pdb|3ULG|A Chain A, Crystal Structure Of Calcium-Binding Protein-1 From
Entamoeba Histolytica In Complex With Barium
pdb|3ULG|B Chain B, Crystal Structure Of Calcium-Binding Protein-1 From
Entamoeba Histolytica In Complex With Barium
Length = 134
Score = 29.3 bits (64), Expect = 6.5, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 5 VGAEGNGEGQFKESRIHKTNSTFSSPNLGADP----VVYKLVRVDGDGKL 50
+ A+GNGE ++ K + +L D V+YKL+ VDGDGKL
Sbjct: 45 IDADGNGE--IDQNEFAKFYGSIQGQDLSDDKIGLKVLYKLMDVDGDGKL 92
>pdb|1JFJ|A Chain A, Nmr Solution Structure Of An Ef-Hand Calcium Binding
Protein From Entamoeba Histolytica
pdb|1JFK|A Chain A, Minimum Energy Representative Structure Of A Calcium
Bound Ef-hand Protein From Entamoeba Histolytica
Length = 134
Score = 29.3 bits (64), Expect = 6.7, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 5 VGAEGNGEGQFKESRIHKTNSTFSSPNLGADP----VVYKLVRVDGDGKL 50
+ A+GNGE ++ K + +L D V+YKL+ VDGDGKL
Sbjct: 45 IDADGNGE--IDQNEFAKFYGSIQGQDLSDDKIGLKVLYKLMDVDGDGKL 92
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 28.9 bits (63), Expect = 8.1, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 529 WTLSEVMKLVEGVSKYGAGRWSEIKR 554
WT E +L++ V KYG RWS I +
Sbjct: 6 WTKEEDQRLIKLVQKYGPKRWSVIAK 31
>pdb|1W0U|A Chain A, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0U|B Chain B, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna
Length = 55
Score = 28.9 bits (63), Expect = 8.6, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 527 RAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSY--RTSVDLK-VWTYIIVLGL 579
+ WT+ E + GV KYG G W+ I + +Y + RT+V +K W + LG+
Sbjct: 3 QKWTVEESEWVKAGVQKYGEGNWAAISK----NYPFVNRTAVMIKDRWRTMKRLGM 54
>pdb|3SJM|A Chain A, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
pdb|3SJM|B Chain B, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
Length = 64
Score = 28.5 bits (62), Expect = 9.9, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 527 RAWTLSEVMKLVEGVSKYGAGRWSEIKRLAFASYSY--RTSVDLK-VWTYIIVLGL 579
+ WT+ E + GV KYG G W+ I + +Y + RT+V +K W + LG+
Sbjct: 12 QKWTVEESEWVKAGVQKYGEGNWAAISK----NYPFVNRTAVMIKDRWRTMKRLGM 63
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
0.311 0.129 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,944,264
Number of Sequences: 62578
Number of extensions: 610944
Number of successful extensions: 985
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 966
Number of HSP's gapped (non-prelim): 22
length of query: 586
length of database: 14,973,337
effective HSP length: 104
effective length of query: 482
effective length of database: 8,465,225
effective search space: 4080238450
effective search space used: 4080238450
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)