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= psy1958
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RBN|A Chain A, Crystal Structure Of Mutl Protein Homolog 1 Isoform 1
[homo Sapiens]
pdb|3RBN|B Chain B, Crystal Structure Of Mutl Protein Homolog 1 Isoform 1
[homo Sapiens]
Length = 284
Score = 84.3 bits (207), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 42/93 (45%), Positives = 57/93 (61%)
Query: 105 QRATSKQTSNKKYKRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATPCMCLIQH 164
Q + + T+ +RR I L+SV L+ EI +Q L E SFVGC P L QH
Sbjct: 17 QGSRKEXTAACTPRRRIINLTSVLSLQEEINEQGHEVLREXLHNHSFVGCVNPQWALAQH 76
Query: 165 ETKLYIVNVTYVLEELFYQLMLHDFGNFGVFRF 197
+TKLY++N T + EELFYQ++++DF NFGV R
Sbjct: 77 QTKLYLLNTTKLSEELFYQILIYDFANFGVLRL 109
>pdb|3NA3|A Chain A, Mutl Protein Homolog 1 Isoform 1 From Homo Sapiens
Length = 348
Score = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 31/43 (72%), Positives = 39/43 (90%)
Query: 6 VNVHPTKHEVHFLHEDTIIERVQSMLEKTLLGSNTSRVFYTQT 48
VNVHPTKHEVHFLHE++I+ERVQ +E LLGSN+SR+++TQT
Sbjct: 306 VNVHPTKHEVHFLHEESILERVQQHIESKLLGSNSSRMYFTQT 348
>pdb|4FMN|A Chain A, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Ntg2
pdb|4FMO|A Chain A, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Exo1
Length = 288
Score = 57.4 bits (137), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 55/106 (51%), Gaps = 7/106 (6%)
Query: 102 IADQRATSKQTSNKKY-----KRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCAT 156
+AD + S Y +R + L+S++ LR +++ +L ++F L++VG
Sbjct: 3 MADDEKNALPISKDGYIRVPKERVNVNLTSIKKLREKVDDSIHRELTDIFANLNYVGVVD 62
Query: 157 P--CMCLIQHETKLYIVNVTYVLEELFYQLMLHDFGNFGVFRFEGS 200
+ IQH+ KL++++ V ELFYQ+ L DF NFG + +
Sbjct: 63 EERRLAAIQHDLKLFLIDYGSVCYELFYQIGLTDFANFGKINLQST 108
>pdb|4E4W|A Chain A, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer
Length = 285
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 54/105 (51%), Gaps = 7/105 (6%)
Query: 103 ADQRATSKQTSNKKY-----KRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATP 157
AD + S Y +R + L+S++ LR +++ +L ++F L++VG
Sbjct: 1 ADDEKNALPISKDGYIRVPKERVNVNLTSIKKLREKVDDSIHRELTDIFANLNYVGVVDE 60
Query: 158 --CMCLIQHETKLYIVNVTYVLEELFYQLMLHDFGNFGVFRFEGS 200
+ IQH+ KL++++ V ELFYQ+ L DF NFG + +
Sbjct: 61 ERRLAAIQHDLKLFLIDYGSVCYELFYQIGLTDFANFGKINLQST 105
>pdb|1B62|A Chain A, Mutl Complexed With Adp
Length = 355
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 6 VNVHPTKHEVHF----LHEDTIIERVQSMLEKTL 35
VNVHP KHEV F L D I + V S+L++ L
Sbjct: 307 VNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQQQL 340
>pdb|1BKN|A Chain A, Crystal Structure Of An N-Terminal 40kd Fragment Of E.
Coli Dna Mismatch Repair Protein Mutl
pdb|1BKN|B Chain B, Crystal Structure Of An N-Terminal 40kd Fragment Of E.
Coli Dna Mismatch Repair Protein Mutl
Length = 352
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 6 VNVHPTKHEVHF----LHEDTIIERVQSMLEKTL 35
VNVHP KHEV F L D I + V S+L++ L
Sbjct: 304 VNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQQQL 337
>pdb|1B63|A Chain A, Mutl Complexed With Adpnp
pdb|1NHH|A Chain A, Crystal Structure Of N-Terminal 40kd Mutl Protein (Ln40)
Complex With Adpnp And One Rubidium
pdb|1NHI|A Chain A, Crystal Structure Of N-Terminal 40kd Mutl (Ln40) Complex
With Adpnp And One Potassium
Length = 333
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 3 QPPVNVHPTKHEVHF----LHEDTIIERVQSMLE 32
Q VNVHP KHEV F L D I + V S+L+
Sbjct: 300 QVDVNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQ 333
>pdb|1NHJ|A Chain A, Crystal Structure Of N-Terminal 40kd MutlA100P MUTANT
PROTEIN COMPLEX With Adpnp And One Sodium
Length = 333
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 3 QPPVNVHPTKHEVHF----LHEDTIIERVQSMLE 32
Q VNVHP KHEV F L D I + V S+L+
Sbjct: 300 QVDVNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQ 333
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
0.322 0.135 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,498,201
Number of Sequences: 62578
Number of extensions: 135797
Number of successful extensions: 328
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 316
Number of HSP's gapped (non-prelim): 10
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)