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= 014489
(423 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 = 3.5, Method: Compositional matrix adjust.
Identities = 53/240 (22%), Positives = 92/240 (38%), Gaps = 43/240 (17%)
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--------LIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQL- 167
L ++IVP I Q + +G++ A +AL G I +L
Sbjct: 299 HGLPGLLGGFSAILIVPGIAVAQ---------LTGIGITLA---LALIGGVIAGALIKLT 346
Query: 168 --IKQSSVRYKALAQAAEPEEVPKEVNKDFDANAQTQLLRGTTDDQEDVSVLVASTKSSS 225
KQ+ A PE+ K +A + Q L+ ++ D +VL A ++ ++
Sbjct: 347 GTTKQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLK----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 = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 11/81 (13%)
Query: 109 ATCASGNL--GNLLLIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQ 166
A A L G++ VPA ++ F N + + + LSY + W+ +
Sbjct: 225 ANAAEAQLQAGDINFFNVPATDYKTAEKFNNLKIVTDLALSYV--------YIGWNEKNE 276
Query: 167 LIKQSSVRYKALAQAAEPEEV 187
L K VR +AL A + E +
Sbjct: 277 LFKDKKVR-QALTTALDRESI 296
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 53/238 (22%), Positives = 90/238 (37%), Gaps = 43/238 (18%)
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--------LIIVPAICHEQGSPFGNRDVCSSVGLSYASFSMALGGFFIWSYSYQL- 167
L ++IVP I Q + +G++ A +AL G I +L
Sbjct: 300 HGLPGLLGGFSAILIVPGIAVAQ---------LTGIGITLA---LALIGGVIAGALIKLT 347
Query: 168 --IKQSSVRYKALAQAAEPEEVPKEVNKDFDANAQTQLLRGTTDDQEDVSVLVASTKS 223
KQ+ A PE+ K +A + Q L+ ++ D +VL A ++
Sbjct: 348 GTTKQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLK----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 = 7.3, 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 = 28.5 bits (62), Expect = 8.4, 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 0.138 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,991,194
Number of Sequences: 62578
Number of extensions: 405095
Number of successful extensions: 1070
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: 1069
Number of HSP's gapped (non-prelim): 7
length of query: 423
length of database: 14,973,337
effective HSP length: 101
effective length of query: 322
effective length of database: 8,652,959
effective search space: 2786252798
effective search space used: 2786252798
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: 53 (25.0 bits)