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= 015887
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BHS|A Chain A, Nitrosomonas Europaea Rh50 And Mechanism Of Conduction By
Rhesus Protein Family Of Channels
Length = 406
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 51/237 (21%), Positives = 88/237 (37%), Gaps = 37/237 (15%)
Query: 3 FWTFFEVASMPIVQV------LLISVLGALMATQYWNLLTADARRSLNKMVFTVFTPSLM 56
FW F A +P Q+ L+++ GA +AT + + L + S+ M +
Sbjct: 189 FWPSFATAIVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVA 248
Query: 57 FASLAKTVTLEEIISWWFMPVNVAMTFLIGGILGWIVVKLLRPKPHLEGLVIATCASGNL 116
S+ V PV + L+GG + + ++P + I TC NL
Sbjct: 249 IGSVCNIVG----------PVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNL 298
Query: 117 GNLL--------LIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQLI 168
L ++IVP I Q + G + +G A + L G
Sbjct: 299 HGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGALIKLTG---------TT 349
Query: 169 KQSSVRYKALAQAAEPEEVPKEVNKDFDANAQTQLLRGTTDDQEDVSVLVASTKSSS 225
KQ+ A PE+ K +A + Q L+ ++ D +VL A ++ ++
Sbjct: 350 KQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLK----NRIDAAVLSAKSEGNA 402
>pdb|1XOC|A Chain A, The Structure Of The Oligopeptide-Binding Protein, Appa,
From Bacillus Subtilis In Complex With A Nonapeptide
Length = 520
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 16/99 (16%)
Query: 100 KPHLEGLVI-----ATCASGNL--GNLLLIIVPAICHEQGSPFGNRDVCSSVGLSYASFS 152
+P+L+ + A A L G++ VPA ++ F N + + + LSY
Sbjct: 211 RPYLDTVTYKVIPDANAAEAQLQAGDINFFNVPATDYKTAEKFNNLKIVTDLALSYV--- 267
Query: 153 MALGGFFIWSYSYQLIKQSSVRYKALAQAAEPEEVPKEV 191
+ W+ +L K VR +AL A + E + +V
Sbjct: 268 -----YIGWNEKNELFKDKKVR-QALTTALDRESIVSQV 300
>pdb|3B9W|A Chain A, The 1.3 A Resolution Structure Of Nitrosomonas Europaea
Rh50 And Mechanistic Implications For Nh3 Transport By
Rhesus Family Proteins
Length = 407
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 51/235 (21%), Positives = 86/235 (36%), Gaps = 37/235 (15%)
Query: 3 FWTFFEVASMPIVQV------LLISVLGALMATQYWNLLTADARRSLNKMVFTVFTPSLM 56
FW F A +P Q+ L+++ GA +AT + + L + S+ M +
Sbjct: 190 FWPSFATAIVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVA 249
Query: 57 FASLAKTVTLEEIISWWFMPVNVAMTFLIGGILGWIVVKLLRPKPHLEGLVIATCASGNL 116
S+ V PV + L+GG + + ++P + I TC NL
Sbjct: 250 IGSVCNIVG----------PVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNL 299
Query: 117 GNLL--------LIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQLI 168
L ++IVP I Q + G + +G A + L G
Sbjct: 300 HGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGALIKLTG---------TT 350
Query: 169 KQSSVRYKALAQAAEPEEVPKEVNKDFDANAQTQLLRGTTDDQEDVSVLVASTKS 223
KQ+ A PE+ K +A + Q L+ ++ D +VL A ++
Sbjct: 351 KQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLK----NRIDAAVLSAKSEG 401
>pdb|3TYW|A Chain A, Crystal Structure Of Cyp105n1 From Streptomyces Coelicolor
A3(2)
pdb|3TYW|B Chain B, Crystal Structure Of Cyp105n1 From Streptomyces Coelicolor
A3(2)
pdb|3TYW|C Chain C, Crystal Structure Of Cyp105n1 From Streptomyces Coelicolor
A3(2)
pdb|3TYW|D Chain D, Crystal Structure Of Cyp105n1 From Streptomyces Coelicolor
A3(2)
pdb|4FXB|A Chain A, Crystal Structure Of Cyp105n1 From Streptomyces
Coelicolor: A Cytochrome P450 Oxidase In The Coelibactin
Siderophore Biosynthetic Pathway
pdb|4FXB|B Chain B, Crystal Structure Of Cyp105n1 From Streptomyces
Coelicolor: A Cytochrome P450 Oxidase In The Coelibactin
Siderophore Biosynthetic Pathway
Length = 417
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 281 LRNLIIGDSAPLRVIQDSIEILGDGTIPC----ITLILGGN 317
LR L + DS PLRV + IE+ G T+P I L+ G N
Sbjct: 290 LRVLSVADSIPLRVAAEDIELSG-RTVPADDGVIALLAGAN 329
>pdb|3B9Y|A Chain A, Crystal Structure Of The Nitrosomonas Europaea Rh Protein
pdb|3B9Z|A Chain A, Crystal Structure Of The Nitrosomonas Europaea Rh Protein
Complexed With Carbon Dioxide
Length = 388
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 48/221 (21%), Positives = 78/221 (35%), Gaps = 33/221 (14%)
Query: 3 FWTFFEVASMPIVQV------LLISVLGALMATQYWNLLTADARRSLNKMVFTVFTPSLM 56
FW F A +P Q+ L+++ GA +AT + + L + S+ M +
Sbjct: 184 FWPSFATAIVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVA 243
Query: 57 FASLAKTVTLEEIISWWFMPVNVAMTFLIGGILGWIVVKLLRPKPHLEGLVIATCASGNL 116
S+ V PV + L+GG + + ++P + I TC NL
Sbjct: 244 IGSVCNIVG----------PVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNL 293
Query: 117 GNLL--------LIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQLI 168
L ++IVP I Q + G + +G A + L G
Sbjct: 294 HGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGALIKLTG---------TT 344
Query: 169 KQSSVRYKALAQAAEPEEVPKEVNKDFDANAQTQLLRGTTD 209
KQ+ A PE+ K +A + Q L+ D
Sbjct: 345 KQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLKNRID 385
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
0.325 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,491,198
Number of Sequences: 62578
Number of extensions: 392482
Number of successful extensions: 1044
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1043
Number of HSP's gapped (non-prelim): 7
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)