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= 018015
(362 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp
Family Of Plant Myb-Related Dna Binding Motifs Of The
Arabidopsis Response Regulators
Length = 64
Score = 58.2 bits (139), Expect = 7e-09, Method: Composition-based stats.
Identities = 29/60 (48%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 30 TTDPKPRLRWTVELHERFVDAVTQLGGPDKATPKTIMRVMGVKGLTLYHLKSHLQKFRLG 89
T KPR+ WT ELH +F+ AV LG ++A PK I+ +M V LT ++ SHLQKFR+
Sbjct: 1 TAQKKPRVLWTHELHNKFLAAVDHLG-VERAVPKKILDLMNVDKLTRENVASHLQKFRVA 59
>pdb|3M6K|A Chain A, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6K|B Chain B, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|B Chain B, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M7D|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Dioxane
Length = 380
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 120 RSMNEMQMEVQRRLHEQLEVQRHLQLRIEAQGKYMQSILEKACQTLASGETVTPASFKGT 179
R + E + ++ RR EQ V+ L+L Q +Y I E LA +F G+
Sbjct: 276 RWIVEHKRDIMRRYLEQRIVECALKL----QDRY--GIREDVALCLAR-------AFDGS 322
Query: 180 IGNQAVPDVGTMKDFCPPLNFSQFQDLNLYGGDQIDH 216
I A T+KD CP L + + +N ID
Sbjct: 323 ISMIATTPYRTLKDVCPDLTLEEAKSVNRTLATLIDE 359
>pdb|2CSB|A Chain A, Crystal Structure Of Topoisomerase V From Methanopyrus
Kandleri (61 Kda Fragment)
pdb|2CSB|B Chain B, Crystal Structure Of Topoisomerase V From Methanopyrus
Kandleri (61 Kda Fragment)
Length = 519
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 120 RSMNEMQMEVQRRLHEQLEVQRHLQLRIEAQGKYMQSILEKACQTLASGETVTPASFKGT 179
R + E + ++ RR EQ V+ L+L Q +Y I E LA +F G+
Sbjct: 276 RWIVEHKRDIXRRYLEQRIVECALKL----QDRY--GIREDVALCLAR-------AFDGS 322
Query: 180 IGNQAVPDVGTMKDFCPPLNFSQFQDLNLYGGDQIDH 216
I A T+KD CP L + + +N ID
Sbjct: 323 ISXIATTPYRTLKDVCPDLTLEEAKSVNRTLATLIDE 359
>pdb|2CSD|A Chain A, Crystal Structure Of Topoisomerase V (61 Kda Fragment)
pdb|2CSD|B Chain B, Crystal Structure Of Topoisomerase V (61 Kda Fragment)
Length = 519
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 120 RSMNEMQMEVQRRLHEQLEVQRHLQLRIEAQGKYMQSILEKACQTLASGETVTPASFKGT 179
R + E + ++ RR EQ V+ L+L Q +Y I E LA +F G+
Sbjct: 276 RWIVEHKRDIMRRYLEQRIVECALKL----QDRY--GIREDVALCLAR-------AFDGS 322
Query: 180 IGNQAVPDVGTMKDFCPPLNFSQFQDLNLYGGDQIDH 216
I A T+KD CP L + + +N ID
Sbjct: 323 ISMIATTPYRTLKDVCPDLTLEEAKSVNRTLATLIDE 359
>pdb|4GFJ|A Chain A, Crystal Structure Of Topo-78, An N-Terminal 78kda Fragment
Of Topoisomerase V
Length = 685
Score = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 120 RSMNEMQMEVQRRLHEQLEVQRHLQLRIEAQGKYMQSILEKACQTLASGETVTPASFKGT 179
R + E + ++ RR EQ V+ L+L Q +Y I E LA +F G+
Sbjct: 276 RWIVEHKRDIMRRYLEQRIVECALKL----QDRY--GIREDVALCLAR-------AFDGS 322
Query: 180 IGNQAVPDVGTMKDFCPPLNFSQFQDLNLYGGDQIDH 216
I A T+KD CP L + + +N ID
Sbjct: 323 ISMIATTPYRTLKDVCPDLTLEEAKSVNRTLATLIDE 359
>pdb|1NKT|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NKT|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NL3|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
pdb|1NL3|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
Length = 922
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 79 LKSHLQKFRLGKQPHKEFNDHSIKDGLDLQRNTASSSGVIGRSMNEMQMEVQRRLHEQLE 138
L S+L K+ D+ ++DG L + + +IGR NE +H+ +E
Sbjct: 317 LVSYLNNALKAKELFSRDKDYIVRDGEVLIVDEFTGRVLIGRRYNE-------GMHQAIE 369
Query: 139 VQRHLQLRIEAQ 150
+ H++++ E Q
Sbjct: 370 AKEHVEIKAENQ 381
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
0.316 0.134 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,349,026
Number of Sequences: 62578
Number of extensions: 459335
Number of successful extensions: 862
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 859
Number of HSP's gapped (non-prelim): 9
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)