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= 001133
(1145 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NCV|A Chain A, Ngol
pdb|3NCV|B Chain B, Ngol
Length = 220
Score = 52.0 bits (123), Expect = 2e-06, Method: Composition-based stats.
Identities = 53/187 (28%), Positives = 83/187 (44%), Gaps = 22/187 (11%)
Query: 919 FIPVVAGGTLAVIDQHAADERIRLEEL-RHKVLSGEGKSVAYLDAEQELVLPEIGYQLLQ 977
+I A +L +ID HAA ER+ E++ R + +G +S Q L++P
Sbjct: 40 YILAQAEDSLLLIDMHAAAERVNYEKMKRQRQENGNLQS-------QHLLIP-------V 85
Query: 978 NFAEQIKDWGWICNIHTQGSRSFNKNLNLLQRQITVITLLAVPCIFGVNLSDVDLL--EF 1035
FA ++ + + H + F L L + + A P + G SDV L +
Sbjct: 86 TFAASHEECAALAD-HAETLAGFG--LELSDMGGNTLAVRAAPVMLGK--SDVVSLARDV 140
Query: 1036 LQQLADTDGSSTTPPSVLRVLNSKACRGAIMFGDSLLPSECALIVEELKQTSLCFQCAHG 1095
L +LA S T R+L + +C G+I G L E ++ +++ T QC HG
Sbjct: 141 LGELAQVGSSQTIASHENRILATMSCHGSIRAGRRLTLPEMNALLRDMENTPRSNQCNHG 200
Query: 1096 RPTTVPL 1102
RPT V L
Sbjct: 201 RPTWVKL 207
>pdb|4FMN|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Ntg2
pdb|4FMO|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Exo1
Length = 240
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 53/238 (22%), Positives = 98/238 (41%), Gaps = 29/238 (12%)
Query: 875 IHNQDNILDISSGLLHLTGEFFIPDSINKSCLEDAKVLQQVDKKFIPVVAGGT----LAV 930
I N+D + D G +LT +++K+ + +V+ Q + FI V L +
Sbjct: 13 IKNKDELEDFEQGEKYLTL------TVSKNDFKKMEVVGQFNLGFIIVTRKVDNKYDLFI 66
Query: 931 IDQHAADERIRLEELRHKVLSGEGKSVAYLDAEQELVLPEIGYQLLQNFAEQIKDWGWIC 990
+DQHA+DE+ E L ++V + Q+L++P+ +L I + +
Sbjct: 67 VDQHASDEKYNFETL---------QAVTVFKS-QKLIIPQ-PVEL-----SVIDELVVLD 110
Query: 991 NIHTQGSRSFNKNLNLLQRQITVITLLAVPCIFGVNLSDVDLLEFLQQLADTDG---SST 1047
N+ F ++ + + + LL++P D E + + + G +
Sbjct: 111 NLPVFEKNGFKLKIDEEEEFGSRVKLLSLPTSKQTLFDLGDFNELIHLIKEDGGLRRDNI 170
Query: 1048 TPPSVLRVLNSKACRGAIMFGDSLLPSECALIVEELKQTSLCFQCAHGRPTTVPLVNL 1105
+ + +ACR +IM G L +V L + + C HGRPT L+ L
Sbjct: 171 RCSKIRSMFAMRACRSSIMIGKPLNKKTMTRVVHNLSELDKPWNCPHGRPTMRHLMEL 228
>pdb|4E4W|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer
Length = 239
Score = 43.9 bits (102), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 53/238 (22%), Positives = 98/238 (41%), Gaps = 29/238 (12%)
Query: 875 IHNQDNILDISSGLLHLTGEFFIPDSINKSCLEDAKVLQQVDKKFIPVVAGGT----LAV 930
I N+D + D G +LT +++K+ + +V+ Q + FI V L +
Sbjct: 12 IKNKDELEDFEQGEKYLTL------TVSKNDFKKMEVVGQFNLGFIIVTRKVDNKYDLFI 65
Query: 931 IDQHAADERIRLEELRHKVLSGEGKSVAYLDAEQELVLPEIGYQLLQNFAEQIKDWGWIC 990
+DQHA+DE+ E L ++V + Q+L++P+ +L I + +
Sbjct: 66 VDQHASDEKYNFETL---------QAVTVFKS-QKLIIPQ-PVEL-----SVIDELVVLD 109
Query: 991 NIHTQGSRSFNKNLNLLQRQITVITLLAVPCIFGVNLSDVDLLEFLQQLADTDG---SST 1047
N+ F ++ + + + LL++P D E + + + G +
Sbjct: 110 NLPVFEKNGFKLKIDEEEEFGSRVKLLSLPTSKQTLFDLGDFNELIHLIKEDGGLRRDNI 169
Query: 1048 TPPSVLRVLNSKACRGAIMFGDSLLPSECALIVEELKQTSLCFQCAHGRPTTVPLVNL 1105
+ + +ACR +IM G L +V L + + C HGRPT L+ L
Sbjct: 170 RCSKIRSMFAMRACRSSIMIGKPLNKKTMTRVVHNLSELDKPWNCPHGRPTMRHLMEL 227
>pdb|3GAB|A Chain A, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|B Chain B, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|C Chain C, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|D Chain D, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3KDG|A Chain A, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form Ii
pdb|3KDG|B Chain B, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form Ii
pdb|3KDK|A Chain A, Structure Of The C-Terminal Domain Of Bacillus Subtilis Mutl
Bound To Zn2+
pdb|3KDK|B Chain B, Structure Of The C-Terminal Domain Of Bacillus Subtilis Mutl
Bound To Zn2+
Length = 197
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 47/178 (26%), Positives = 72/178 (40%), Gaps = 28/178 (15%)
Query: 928 LAVIDQHAADERIRLEELRHKVLSGEGKSVAYLDAEQELVLPEIGYQLLQNFAEQIKDWG 987
L +IDQHAA ERI+ E R KV E + QE+++P + + N A
Sbjct: 28 LYIIDQHAAQERIKYEYFREKVGEVEPEV-------QEMIVP-LTFHYSTNEA------- 72
Query: 988 WICNIHTQGSRSFNKNLNLLQRQITVITLLAVPCIFGVNLSDVDLLEFLQQLADTDGSST 1047
I H Q S L ++ P F + E +QQ+ D+
Sbjct: 73 LIIEQHKQELESVGVFLESFGSNSYIVR--CHPAWFPKGEEAELIEEIIQQVLDSKNID- 129
Query: 1048 TPPSVLRVLNSKA-----CRGAIMFGDSLLPSECALIVEELKQTSLCFQCAHGRPTTV 1100
++ L +A C+G+I L E ++++L+ TS F C HGRP +
Sbjct: 130 -----IKKLREEAAIMMSCKGSIKANRHLRNDEIKALLDDLRSTSDPFTCPHGRPIII 182
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
0.317 0.133 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,955,844
Number of Sequences: 62578
Number of extensions: 1490154
Number of successful extensions: 3426
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 3418
Number of HSP's gapped (non-prelim): 8
length of query: 1145
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1036
effective length of database: 8,152,335
effective search space: 8445819060
effective search space used: 8445819060
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: 57 (26.6 bits)