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= 004439
(753 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AX1|A Chain A, Molecular Insights Into Mirna Processing By Arabidopsis
Serrate
Length = 358
Score = 538 bits (1387), Expect = e-153, Method: Compositional matrix adjust.
Identities = 264/355 (74%), Positives = 296/355 (83%), Gaps = 5/355 (1%)
Query: 224 GLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLV 283
GLMSYKQFIQELEDDILP+EAERRYQEYKSEYI+TQKR FF+ HK+E+WLK+KYHPTNL+
Sbjct: 1 GLMSYKQFIQELEDDILPSEAERRYQEYKSEYITTQKRAFFNTHKEEDWLKNKYHPTNLL 60
Query: 284 AVIERRNDLARKVAKDFLLDLQSGTLDLGPSVNASSSNKLGQTSEPNSDDDVDNGGKRRR 343
+VIERRNDLA+KVAKDFLLDLQSGTLDLGP+V A NK G+TSEPNS+D+ GKR+R
Sbjct: 61 SVIERRNDLAQKVAKDFLLDLQSGTLDLGPAVTA--LNKSGRTSEPNSEDEAAGVGKRKR 118
Query: 344 HGRGPAKETDLLSAAPKAHPISSEPRRIQVDIEQAQALVRKLDSEKGITENILCGSDNDK 403
HG G AKE +LLSAAPKA +S+P+RI D+EQ QALVRKLDSEK I EN+L GS+ +K
Sbjct: 119 HGMGGAKENELLSAAPKAPSFTSDPKRILTDVEQTQALVRKLDSEKKIEENVLQGSETEK 178
Query: 404 MNREKSH-GSTGPVIIIRGLTSVKGLEGVELLDTLITYLWRIHGVDYYGMVETSEAKGLR 462
REK H GSTGPV+IIRGLTSVKGLEGVELLDTL+TYLWR+HG+DYYG VET+EAKGLR
Sbjct: 179 SGREKLHSGSTGPVVIIRGLTSVKGLEGVELLDTLVTYLWRVHGLDYYGKVETNEAKGLR 238
Query: 463 HVRAEGKSSDITNNGAEWEKKLDFRWQERLRSQDPLEIMTXXXXXXXXXXXXXXPFVRKI 522
HVRAEGK SD G E E K D WQERL+ QDPLE+M P VRKI
Sbjct: 239 HVRAEGKVSDA--KGDENESKFDSHWQERLKGQDPLEVMAAKEKIDAAATEALDPHVRKI 296
Query: 523 RDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYM 577
RDEKYGWKYGCGAKGCTKLFHAAEFV+KHLKLKH ELV ELT+KVREELYFQNY+
Sbjct: 297 RDEKYGWKYGCGAKGCTKLFHAAEFVYKHLKLKHTELVTELTTKVREELYFQNYL 351
>pdb|4GRS|A Chain A, Crystal Structure Of A Chimeric Dah7ps
pdb|4GRS|B Chain B, Crystal Structure Of A Chimeric Dah7ps
pdb|4GRS|C Chain C, Crystal Structure Of A Chimeric Dah7ps
pdb|4GRS|D Chain D, Crystal Structure Of A Chimeric Dah7ps
Length = 333
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 442 WRIHGVDYYGMVETSEAKGLRHVRAEGKSSDITNNGA 478
W D YG+V +E RHV K SDI GA
Sbjct: 149 WMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGA 185
>pdb|1ZCO|A Chain A, Crystal Structure Of Pyrococcus Furiosus
3-Deoxy-D-Arabino- Heptulosonate 7-Phosphate Synthase
pdb|1ZCO|B Chain B, Crystal Structure Of Pyrococcus Furiosus
3-Deoxy-D-Arabino- Heptulosonate 7-Phosphate Synthase
Length = 262
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 442 WRIHGVDYYGMVETSEAKGLRHVRAEGKSSDITNNGA 478
W D YG+V +E RHV K SDI GA
Sbjct: 78 WMREAADEYGLVTVTEVMDTRHVELVAKYSDILQIGA 114
>pdb|2GT3|A Chain A, Solution Structure And Dynamics Of The Reduced Form Of
Methionine Sulfoxide Reductase A From Escherichia Coli,
A 23 Kda Protein
Length = 212
Score = 30.0 bits (66), Expect = 4.5, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 32/68 (47%)
Query: 190 AGRSSGGYQSGPSEWDSSRGGYGDASNTGSTQREGLMSYKQFIQELEDDILPAEAERRYQ 249
A +GGY P+ + G G A ++SY+Q +Q ++ PA+ R+
Sbjct: 70 AAGYTGGYTPNPTYREVCSGDTGHAEAVRIVYDPSVISYEQLLQVFWENHDPAQGMRQGN 129
Query: 250 EYKSEYIS 257
++ ++Y S
Sbjct: 130 DHGTQYRS 137
>pdb|2IEM|A Chain A, Solution Structure Of An Oxidized Form (Cys51-Cys198) Of
E. Coli Methionine Sulfoxide Reductase A (Msra)
Length = 211
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%)
Query: 190 AGRSSGGYQSGPSEWDSSRGGYGDASNTGSTQREGLMSYKQFIQELEDDILPAEAERRYQ 249
A +GGY P+ + S G G A ++SY+Q +Q ++ PA+ R+
Sbjct: 69 AAGYTGGYTPNPTYREVSSGDTGHAEAVRIVYDPSVISYEQLLQVFWENHDPAQGMRQGN 128
Query: 250 EYKSEY 255
++ ++Y
Sbjct: 129 DHGTQY 134
>pdb|1FF3|A Chain A, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
pdb|1FF3|B Chain B, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
pdb|1FF3|C Chain C, Structure Of The Peptide Methionine Sulfoxide Reductase
From Escherichia Coli
Length = 211
Score = 30.0 bits (66), Expect = 4.8, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 32/68 (47%)
Query: 190 AGRSSGGYQSGPSEWDSSRGGYGDASNTGSTQREGLMSYKQFIQELEDDILPAEAERRYQ 249
A +GGY P+ + G G A ++SY+Q +Q ++ PA+ R+
Sbjct: 69 AAGYTGGYTPNPTYREVCSGDTGHAEAVRIVYDPSVISYEQLLQVFWENHDPAQGMRQGN 128
Query: 250 EYKSEYIS 257
++ ++Y S
Sbjct: 129 DHGTQYRS 136
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
0.315 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,911,610
Number of Sequences: 62578
Number of extensions: 797633
Number of successful extensions: 1256
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1247
Number of HSP's gapped (non-prelim): 8
length of query: 753
length of database: 14,973,337
effective HSP length: 106
effective length of query: 647
effective length of database: 8,340,069
effective search space: 5396024643
effective search space used: 5396024643
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)