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= psy312
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4H63|V Chain V, Structure Of The Schizosaccharomyces Pombe Mediator Head
Module
Length = 135
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 7 DLYEMHVRAGNIVRAGESLLKLVSDIKQYLILN----DFPSVN 45
++Y++ ++VRA E LL + IK Y + N FP+V+
Sbjct: 51 EVYQIECHTVSMVRAVEQLLDVSRQIKSYWLTNSLSTSFPTVD 93
>pdb|1K8G|A Chain A, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
pdb|1K8G|B Chain B, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
pdb|1K8G|C Chain C, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
Length = 320
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 6 LDLYEMHVRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQNSKL 54
L L HVR G +VR + S K+ LIL+ + ++ I Q+SKL
Sbjct: 258 LKLKFPHVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFI-QSSKL 305
>pdb|1DOV|A Chain A, Crystal Structure Of The Alpha-Catenin Dimerization
Domain
Length = 181
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 13 VRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQ 50
V+ GN+VRA +LL S + + LIL D V + + Q
Sbjct: 38 VKRGNMVRAARALL---SAVTRLLILADMADVYKLLVQ 72
>pdb|4IGG|A Chain A, Full-Length Human Alpha-Catenin Crystal Structure
pdb|4IGG|B Chain B, Full-Length Human Alpha-Catenin Crystal Structure
Length = 832
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 13 VRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQ 50
V+ GN+VRA +LL S + + LIL D V + + Q
Sbjct: 38 VKRGNMVRAARALL---SAVTRLLILADMADVYKLLVQ 72
>pdb|1OTC|A Chain A, The O. Nova Telomere End Binding Protein Complexed With
Single Strand Dna
pdb|1JB7|A Chain A, Dna G-Quartets In A 1.86 A Resolution Structure Of An
Oxytricha Nova Telomeric Protein-Dna Complex
pdb|1KIX|A Chain A, Dimeric Structure Of The O. Nova Telomere End Binding
Protein Alpha Subunit With Bound Ssdna
pdb|2I0Q|A Chain A, Crystal Structure Of A Telomere Single-Strand Dna-Protein
Complex From O. Nova With Full-Length Alpha And Beta
Telomere Proteins
Length = 495
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 6 LDLYEMHVRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQNSKL 54
L L HVR G +VR + S K+ LIL+ + ++ I Q+SKL
Sbjct: 258 LKLKFPHVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFI-QSSKL 305
>pdb|1PH1|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttggggt
pdb|1PH6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgtgg
pdb|1PHJ|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna Gg(3dr)
Gttttgggg
Length = 461
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 6 LDLYEMHVRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQNSKL 54
L L HVR G +VR + S K+ LIL+ + ++ I Q+SKL
Sbjct: 224 LKLKFPHVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFI-QSSKL 271
>pdb|1PA6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
pdb|1PH3|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggtg
pdb|1PH4|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggcg
pdb|1PH7|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgigg
pdb|1PH8|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgcgg
pdb|1PH9|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
Length = 460
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 12 HVRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQNSKL 54
HVR G +VR + S K+ LIL+ + ++ I Q+SKL
Sbjct: 229 HVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFI-QSSKL 270
>pdb|1PH2|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg
pdb|1PH5|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg(3dr)gg
Length = 459
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 6 LDLYEMHVRAGNIVRAGESLLKLVSDIKQYLILNDFPSVNEAITQNSKL 54
L L HVR G +VR + S K+ LIL+ + ++ I Q+SKL
Sbjct: 223 LKLKFPHVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFI-QSSKL 270
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 0.133 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,340,675
Number of Sequences: 62578
Number of extensions: 71987
Number of successful extensions: 170
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 165
Number of HSP's gapped (non-prelim): 13
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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: 45 (21.9 bits)