RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780772|ref|YP_003065185.1| surface antigen (D15)
[Candidatus Liberibacter asiaticus str. psy62]
(781 letters)
>3efc_A OMP85, outer membrane protein assembly factor YAET; potra fold,
cell membrane, cell outer membrane; 3.30A {Escherichia
coli}
Length = 395
Score = 210 bits (535), Expect = 1e-54
Identities = 103/391 (26%), Positives = 183/391 (46%), Gaps = 6/391 (1%)
Query: 43 SNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV 102
+ +V+ I G V L +PV G +++D D+ + ++ ++A G F +V++
Sbjct: 4 AEGFVVKDIHFEGLQRVAVGAALLSMPVRTGDTVNDEDISNTIRALFATGNFEDVRVLRD 63
Query: 103 DSVLIIDLIERKIINHLFFSGNNNLKDDQLKMIVRSRSAAA---YDEDTVNADVHNIKQA 159
L++ + ER I + FSGN ++KDD LK + + D T+ ++
Sbjct: 64 GDTLLVQVKERPTIASITFSGNKSVKDDMLKQNLEASGVRVGESLDRTTIADIEKGLEDF 123
Query: 160 YASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIR 219
Y S+G + VK + +++ V +EGV A+I I VGN ++ L +R
Sbjct: 124 YYSVGKYSASVKAVVTPLPRNRVDLKLVFQEGVSAEIQQINIVGNHAFTTDELISHFQLR 183
Query: 220 TSGYFSFGKTD-VYSKERMSFDEEAIRAFYHDRGYAAVKV-SSQVLFDKQKSGYVLIFQI 277
+ D Y K++++ D E +R++Y DRGYA + S+QV K G + I
Sbjct: 184 DEVPWWNVVGDRKYQKQKLAGDLETLRSYYLDRGYARFNIDSTQVSLTPDKKGIYVTVNI 243
Query: 278 DEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPF 337
EG+ Y + + + L + L +I G LYN ++ + + I K +
Sbjct: 244 TEGDQYKLSGVEVSGNL-AGHSAEIEQLTKIEPGELYNGTKVTKMEDDIKKLLGRYGYAY 302
Query: 338 VRVKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINY 397
RV++ + A + V + +D G+ YV++I EGND S D+V+RRE+ EG +
Sbjct: 303 PRVQSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTSKDAVLRREMRQMEGAWLGS 362
Query: 398 SMIERAKRRIMATGYFSEVNISQLPANDVSD 428
++++ K R+ G+F V+ D
Sbjct: 363 DLVDQGKERLNRLGFFETVDTDTQRVPGSPD 393
>2qdz_A TPSB transporter FHAC; beta barrel, potra domain, membrane, protein
transport; 3.15A {Bordetella pertussis}
Length = 554
Score = 137 bits (344), Expect = 1e-32
Identities = 63/543 (11%), Positives = 135/543 (24%), Gaps = 49/543 (9%)
Query: 259 SSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQE 318
++ + + G TV + + + E + L++ + ++
Sbjct: 35 PVELNPQSEAAAPARKPDATSGHTVTVHAVDLDFGV-EGRLFDPAPLVQDYLNRPLDNEQ 93
Query: 319 IKESSEKISKYFFSGERPFVRVKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQS 378
+ + +S + V T + ++ ++ +
Sbjct: 94 LFLLVKALSAALYDRGYATSIV-TFVPPGVVDGVLKLKVEWGRIK--GWLIDGKPLEGTR 150
Query: 379 YDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQ 438
++ + + +N I++A I G + I S +
Sbjct: 151 DRMMVFSAMPGWQDKVLNVFDIDQAIYNINNGGKTGNITIVPADEYGYSYLDLQLQRRAL 210
Query: 439 LSAGSVGIATNYEVDKGMGVEGH--IDDNNFFGQGYRARLAAG------FGRHAVQNYTF 490
+ + + + + N+ G L G G A +NY
Sbjct: 211 PRVSLGMDNSGPGTPENGRYKYNASVTANDLLGLNDTLGLYIGNRYYRDAGHDAERNYDL 270
Query: 491 SVEDPYF---LGSPISAGFDLQKTHLEDGSLDINDESAAVRM----IVPITESISTSFKY 543
P L G S + + ++ S
Sbjct: 271 MYSVPLGRTRLDLQTGYSTYRNLLKTRYGQYQSAGNSRSFGLKATRLLYRDTRSQFSVYG 330
Query: 544 DLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYD 603
L+ Q ++ + +S + D G+
Sbjct: 331 GLKLRQNKNYLAGTRLDVSSKHYSDVTVGMQYSTQRGANAYFGDLSFTRGVGVNNGKYAA 390
Query: 604 YAGFGGDSQYHRIGSRASYFY---LLSDDSDIVGSLRFGYGCVIPSNKNLQLFDQFSVSS 660
Y G R ++ L L F Y S + L Q +V
Sbjct: 391 YDERGPQGNVSRFNGSLAWTRYMALAGQPIQWASQLGFQY-----SRQQLLNSYQITVGD 445
Query: 661 NYYLRGFAYKGIGPRVDKKYAIGGK--IYSSASAAVSFPMPLVPERAGLRGAFFVDSATL 718
Y +RG+ + + G +Y S + V L+ ++A + D L
Sbjct: 446 EYTVRGYNLRT---------SQSGDSGVYLSNTLTVPVQFSLLGKQASVAPFVGADVGAL 496
Query: 719 YANHVALGADKLEGNDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQ---QFGF 775
+NH + + ++ P M Y P+ + G +
Sbjct: 497 KSNH--------PDARTIRMAGLAAGVRFDLPYARMSFTYSKPVGAQPGGAPRAPVWLYI 548
Query: 776 RIG 778
G
Sbjct: 549 NAG 551
Score = 39.6 bits (91), Expect = 0.002
Identities = 10/114 (8%), Positives = 26/114 (22%), Gaps = 2/114 (1%)
Query: 112 ERKIINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVK 171
++ + + +V+ D + + V + A GY +V
Sbjct: 57 HTVTVHAVDLDFGVEGRLFDPAPLVQDYLNRPLDNEQLFLLVKALSAALYDRGYATSIVT 116
Query: 172 VQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFS 225
+ L + +E G + + +
Sbjct: 117 FVPPGVVDGVLKL--KVEWGRIKGWLIDGKPLEGTRDRMMVFSAMPGWQDKVLN 168
Score = 34.2 bits (77), Expect = 0.12
Identities = 14/121 (11%), Positives = 35/121 (28%), Gaps = 10/121 (8%)
Query: 48 VRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNI--------YAMGYFSNVKI 99
V +++ + + + + + L VK + YA + V
Sbjct: 61 VHAVDLDFGVEGRLFDPAPLVQDYLNRPLDNEQLFLLVKALSAALYDRGYATSIVTFVPP 120
Query: 100 KIVDSVLIIDLIERKI--INHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIK 157
+VD VL + + +I + + + ++ ++NI
Sbjct: 121 GVVDGVLKLKVEWGRIKGWLIDGKPLEGTRDRMMVFSAMPGWQDKVLNVFDIDQAIYNIN 180
Query: 158 Q 158
Sbjct: 181 N 181
>2qdf_A OMP85, outer membrane protein assembly factor YAET; potra domain,
protein transport; 2.20A {Escherichia coli K12} PDB:
2qcz_A 2v9h_A
Length = 335
Score = 127 bits (319), Expect = 9e-30
Identities = 79/336 (23%), Positives = 150/336 (44%), Gaps = 6/336 (1%)
Query: 39 AVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVK 98
+ + +V+ I G V L +PV G +++D D+ + ++ ++A G F +V+
Sbjct: 1 GSHMAEGFVVKDIHFEGLQRVAVGAALLSMPVRTGDTVNDEDISNTIRALFATGNFEDVR 60
Query: 99 IKIVDSVLIIDLIERKIINHLFFSGNNNLKDDQLKMIVRSRSAAA---YDEDTVNADVHN 155
+ L++ + ER I + FSGN ++KDD LK + + D T+
Sbjct: 61 VLRDGDTLLVQVKERPTIASITFSGNKSVKDDMLKQNLEASGVRVGESLDRTTIADIEKG 120
Query: 156 IKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGNK-NYSHARLER 214
++ Y S+G + VK + +++ V +EGV A+I I VGN + +
Sbjct: 121 LEDFYYSVGKYSASVKAVVTPLPRNRVDLKLVFQEGVSAEIQQINIVGNHAFTTDELISH 180
Query: 215 VISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQVL-FDKQKSGYVL 273
+++ Y K++++ D E +R++Y DRGYA + S + K G +
Sbjct: 181 FQLRDEVPWWNVVGDRKYQKQKLAGDLETLRSYYLDRGYARFNIDSTQVSLTPDKKGIYV 240
Query: 274 IFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSG 333
I EG+ Y + + + L + L +I G LYN ++ + + I K
Sbjct: 241 TVNITEGDQYKLSGVEVSGNL-AGHSAEIEQLTKIEPGELYNGTKVTKMEDDIKKLLGRY 299
Query: 334 ERPFVRVKTRINRDFAKRIVDIEYLIDQGSPLYVKR 369
+ RV++ + A + V + +D G+ YV++
Sbjct: 300 GYAYPRVQSMPEINDADKTVKLRVNVDAGNRFYVRK 335
Score = 43.5 bits (101), Expect = 2e-04
Identities = 15/53 (28%), Positives = 22/53 (41%)
Query: 367 VKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNIS 419
VK I EG + + + GD +N I R + ATG F +V +
Sbjct: 10 VKDIHFEGLQRVAVGAALLSMPVRTGDTVNDEDISNTIRALFATGNFEDVRVL 62
>3mc9_A ALR2269 protein; polypeptide transport associated, potra, outer
bacterial MEM protein membrane transport, beta barrel
biogenesis, membran; 2.20A {Nostoc SP} PDB: 3mc8_A
Length = 316
Score = 107 bits (267), Expect = 1e-23
Identities = 39/257 (15%), Positives = 89/257 (34%), Gaps = 24/257 (9%)
Query: 193 KAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRG 252
+ ++ + LE + ++ ++ +E I A +
Sbjct: 61 RVLVSEVLVRPQSGQLTPELETQVY----NVIRTQPGRTTTRSQL---QEDINAIFGTGF 113
Query: 253 YAAVKVSSQVLFDKQKSGYVLIFQIDEGEIYTVGNIS---IQSTLQEIQKKTLLSLIRIR 309
++ V+ S + G + F + + + I + + + T + R +
Sbjct: 114 FSNVQAS----PEDTPLGVRVSFIVQPNPVLSKVEIQANPGTNVPSVLPQATADEIFRAQ 169
Query: 310 SGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRDFAK---------RIVDIEYLID 360
G + N ++++E ++++K + V + +I
Sbjct: 170 YGKILNLRDLQEGIKELTKRYQDQGYVLANVVGAPQVSENGVVTLQVAEGVVENISVRFR 229
Query: 361 QGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQ 420
V ++ D +I RE+EL G N + +++ +R+ TG F +VN+S
Sbjct: 230 NKEGQDVNEQGQPIRGRTQDYIITREVELKPGQVFNRNTVQKDLQRVFGTGLFEDVNVSL 289
Query: 421 LPANDVSDYVILRVSVK 437
P D V + V+V
Sbjct: 290 DPGTD-PTKVNVVVNVV 305
Score = 93.0 bits (230), Expect = 2e-19
Identities = 28/252 (11%), Positives = 78/252 (30%), Gaps = 21/252 (8%)
Query: 47 IVRRIEIRGATNVG----KEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV 102
+V + +R + + + + I G++ + + L + I+ G+FSNV+
Sbjct: 63 LVSEVLVRPQSGQLTPELETQVYNVIRTQPGRTTTRSQLQEDINAIFGTGFFSNVQASPE 122
Query: 103 DS----VLIIDLIERKIINHLFFSGNNNLKDD------QLKMIVRSRSAAAYDEDTVNAD 152
D+ + + +++ + N I R++ + +
Sbjct: 123 DTPLGVRVSFIVQPNPVLSKVEIQANPGTNVPSVLPQATADEIFRAQYGKILNLRDLQEG 182
Query: 153 VHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSHARL 212
+ + + Y GY+ V + + + G +
Sbjct: 183 IKELTKRYQDQGYVLANVVGAPQVSENGVVTLQVAEGVVENISVRFRNKEGQDVNEQGQP 242
Query: 213 ERVISIRT--SGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQVLFDKQKSG 270
R + + V+++ + ++ ++ + + V VS D K
Sbjct: 243 IRGRTQDYIITREVELKPGQVFNRNTV---QKDLQRVFGTGLFEDVNVSLDPGTDPTKV- 298
Query: 271 YVLIFQIDEGEI 282
++ + E +
Sbjct: 299 -NVVVNVVERSL 309
Score = 40.3 bits (93), Expect = 0.002
Identities = 9/104 (8%), Positives = 29/104 (27%), Gaps = 6/104 (5%)
Query: 16 EKYFPRSFQMGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQS 75
+ + V +I + + GQ
Sbjct: 204 PQVSENGVVTLQVAEGVVENISVRFRNKEGQDVNEQGQPIRGRTQDYIITREVELKPGQV 263
Query: 76 ISDADLDHAVKNIYAMGYFSNVKIKIVDS------VLIIDLIER 113
+ + ++ ++ G F +V + + ++++++ER
Sbjct: 264 FNRNTVQKDLQRVFGTGLFEDVNVSLDPGTDPTKVNVVVNVVER 307
>2x8x_X TLR1789 protein, OMP85; chaperone, TOC75, protein targeting; 1.97A
{Thermosynechococcus elongatus}
Length = 235
Score = 103 bits (257), Expect = 2e-22
Identities = 38/250 (15%), Positives = 94/250 (37%), Gaps = 21/250 (8%)
Query: 190 EGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYH 249
+ K I + G + +VIS R ++ ++ ++ A +
Sbjct: 1 DEPKVLIAEVVVEGATPELEQLVYQVISTRPG--------STTTRTQL---QQDTNAIFA 49
Query: 250 DRGYAAVKVSSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIR 309
+A V G + F + + ++ + ++ + + +
Sbjct: 50 TGFFADVNAV----PRDTPLGVRITFVVRPYPVLRAVQVAGNQ---VLTQEKVNEIFAPQ 102
Query: 310 SGNLYNPQEIKESSEKISKYFFSGERPFVRVK--TRINRDFAKRIVDIEYLIDQGSPLYV 367
G N +E++ EKI+ ++ +V +++ D + E +++Q + ++
Sbjct: 103 IGRTLNLRELQAGIEKINTFYRDNGYILGQVVGTPQVDPDGVVTLQVAEGVVEQVTYRFL 162
Query: 368 KRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVS 427
+ ++ D VI RE++ G +N ++ RR+ G F +V ++ P +
Sbjct: 163 NKEGEPTKQRTRDFVISREMDTQPGVVLNQKTVQADLRRLFELGLFEDVQVALEPGQN-P 221
Query: 428 DYVILRVSVK 437
V L +++K
Sbjct: 222 RRVNLILNIK 231
Score = 96.1 bits (238), Expect = 3e-20
Identities = 35/238 (14%), Positives = 83/238 (34%), Gaps = 14/238 (5%)
Query: 47 IVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDS-- 104
++ + + GAT ++++ I G + + L I+A G+F++V D+
Sbjct: 6 LIAEVVVEGATPELEQLVYQVISTRPGSTTTRTQLQQDTNAIFATGFFADVNAVPRDTPL 65
Query: 105 --VLIIDLIERKIINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYAS 162
+ + ++ + +GN L +++ I + + + A + I Y
Sbjct: 66 GVRITFVVRPYPVLRAVQVAGNQVLTQEKVNEIFAPQIGRTLNLRELQAGIEKINTFYRD 125
Query: 163 IGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSG 222
GY+ V + + + + G R + VIS
Sbjct: 126 NGYILGQVVGTPQVDPDGVVTLQVAEGVVEQVTYRFLNKEGEPTKQRTR-DFVISRE--- 181
Query: 223 YFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQVLFDKQKSGYVLIFQIDEG 280
V +++ + + +R + + V+V+ + + ++ LI I E
Sbjct: 182 -MDTQPGVVLNQKTV---QADLRRLFELGLFEDVQVALEPGQNPRRV--NLILNIKER 233
Score = 74.5 bits (182), Expect = 8e-14
Identities = 33/252 (13%), Positives = 85/252 (33%), Gaps = 28/252 (11%)
Query: 112 ERKIINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVK 171
+ +I + G + + ++ +R + + D + I +A+ + +V
Sbjct: 3 PKVLIAEVVVEGATPELEQLVYQVISTRPGSTTTRTQLQQDTNAI---FATGFFADVNAV 59
Query: 172 VQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDV 231
+ L + + +++ GN+ + ++ + + +
Sbjct: 60 PRDTP-----LGVRITFVVRPYPVLRAVQVAGNQVLTQEKVNEIFAPQ--------IGRT 106
Query: 232 YSKERMSFDEEAIRAFYHDRGYAAVKVSSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQ 291
+ + E I FY D GY +V D V+ Q+ EG + V +
Sbjct: 107 LNLRELQAGIEKINTFYRDNGYILGQVVGTPQVDPDG---VVTLQVAEGVVEQVTYRFLN 163
Query: 292 STLQEIQKKTLLSLIR----IRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRD 347
+ +++T +I + G + N + ++ ++ + F V+ +
Sbjct: 164 KEGEPTKQRTRDFVISREMDTQPGVVLNQKTVQADLRRLFELGL-----FEDVQVALEPG 218
Query: 348 FAKRIVDIEYLI 359
R V++ I
Sbjct: 219 QNPRRVNLILNI 230
Score = 49.9 bits (118), Expect = 2e-06
Identities = 14/94 (14%), Positives = 32/94 (34%)
Query: 361 QGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQ 420
+ + + +EG + ++ + + G + +++ I ATG+F++VN
Sbjct: 1 DEPKVLIAEVVVEGATPELEQLVYQVISTRPGSTTTRTQLQQDTNAIFATGFFADVNAVP 60
Query: 421 LPANDVSDYVILRVSVKQLSAGSVGIATNYEVDK 454
+ L A V +K
Sbjct: 61 RDTPLGVRITFVVRPYPVLRAVQVAGNQVLTQEK 94
Score = 35.6 bits (81), Expect = 0.046
Identities = 15/104 (14%), Positives = 36/104 (34%), Gaps = 9/104 (8%)
Query: 17 KYFPRSFQMGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSI 76
P+ G + L A + V + + VI + G +
Sbjct: 134 VGTPQVDPDGVVTLQVAEGVVEQVTYRF---LNKEGEPTKQRTRDFVISREMDTQPGVVL 190
Query: 77 SDADLDHAVKNIYAMGYFSNVKIKIVD------SVLIIDLIERK 114
+ + ++ ++ +G F +V++ + LI+++ ER
Sbjct: 191 NQKTVQADLRRLFELGLFEDVQVALEPGQNPRRVNLILNIKERN 234
>3og5_A Outer membrane protein assembly complex, YAET Pro; potra fold,
insertion of outer membrane proteins, protein BI; 2.69A
{Escherichia coli}
Length = 166
Score = 102 bits (254), Expect = 4e-22
Identities = 41/163 (25%), Positives = 75/163 (46%), Gaps = 1/163 (0%)
Query: 280 GEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVR 339
+ Y + + + L + L +I G LYN ++ + + I K + R
Sbjct: 3 MDQYKLSGVEVSGNL-AGHSAEIEQLTKIEPGELYNGTKVTKMEDDIKKLLGRYGYAYPR 61
Query: 340 VKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSM 399
V++ + A + V + +D G+ YV++I EGND S D+V+RRE+ EG + +
Sbjct: 62 VQSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTSKDAVLRREMRQMEGAWLGSDL 121
Query: 400 IERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQLSAG 442
+++ K R+ G+F V+ D V + VK+ + G
Sbjct: 122 VDQGKERLNRLGFFETVDTDTQRVPGSPDQVDVVYKVKERNTG 164
Score = 61.4 bits (148), Expect = 8e-10
Identities = 30/170 (17%), Positives = 63/170 (37%), Gaps = 15/170 (8%)
Query: 195 KINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYA 254
K++ + GN A +E++ I ++Y+ +++ E+ I+ GYA
Sbjct: 7 KLSGVEVSGNLAGHSAEIEQLTKIE--------PGELYNGTKVTKMEDDIKKLLGRYGYA 58
Query: 255 AVKVSSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLY 314
+V S + L +D G + V I + + L +R G
Sbjct: 59 YPRVQSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGN-DTSKDAVLRREMRQMEGAWL 117
Query: 315 NPQEIKESSEKISKY-FFSGERPFVRVKTRINRDFAKRIVDIEYLIDQGS 363
+ + E++++ FF V T+ + VD+ Y + + +
Sbjct: 118 GSDLVDQGKERLNRLGFFE----TVDTDTQRVPGSPDQ-VDVVYKVKERN 162
Score = 49.8 bits (118), Expect = 2e-06
Identities = 23/128 (17%), Positives = 47/128 (36%), Gaps = 2/128 (1%)
Query: 111 IERKIINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMV 170
+++ ++ + SGN +++ + + Y+ V +IK+ GY V
Sbjct: 3 MDQYKLSGVEVSGNLAGHSAEIEQLTKIEPGELYNGTKVTKMEDDIKKLLGRYGYAYPRV 62
Query: 171 KVQHHSISPT-TLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKT 229
+ T+ + ++ G + + IRF GN A L R + +
Sbjct: 63 QSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTSKDAVLRREMRQMEGAWLG-SDL 121
Query: 230 DVYSKERM 237
KER+
Sbjct: 122 VDQGKERL 129
Score = 33.3 bits (75), Expect = 0.19
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 7/72 (9%)
Query: 49 RRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDS---- 104
R+I G V+ + + G + +D + + +G+F V
Sbjct: 90 RKIRFEGNDTSKDAVLRREMRQMEGAWLGSDLVDQGKERLNRLGFFETVDTDTQRVPGSP 149
Query: 105 ---VLIIDLIER 113
++ + ER
Sbjct: 150 DQVDVVYKVKER 161
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 54.2 bits (130), Expect = 1e-07
Identities = 59/375 (15%), Positives = 106/375 (28%), Gaps = 144/375 (38%)
Query: 483 HAVQNYTFSVEDP---YFLGSPISAGFDLQKTHLEDGSLDINDESAAVRMIVPITESIST 539
H + V P +F+ S + F L + + + A + +T
Sbjct: 13 HGSLEHVLLV--PTASFFIASQLQEQF---NKILPEPT----EGFA-------ADDEPTT 56
Query: 540 SFKYDLRFLQYGAISEKEKIPSIYTTLIE--HGKFSS--------HSI------------ 577
+ +FL Y + + + ++ +F + H++
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL 116
Query: 578 --SQSII---YNT---LDNPIV-PRKGMLISSSYD-----YAGFGGDSQYHRIGSRASYF 623
++ +I P L + + A FGG Q G+ YF
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG--Q----GNTDDYF 170
Query: 624 YLLSD--D--SDIVGSLRFGYGCVIPSNKNLQ-LFDQFSVSSNYYLRGF---AY-KGIGP 674
L D +VG L + S + L L + + +G + +
Sbjct: 171 EELRDLYQTYHVLVGDL------IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 675 RVDKKYAIGGKIYSSASAAVSFP----------------MPLVP-E-RAGLRGAFFVDSA 716
DK Y S +S P + P E R+ L+GA
Sbjct: 225 TPDKDYL--------LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA------ 270
Query: 717 TLYANH-----VAL---GADKLEGNDSFWRVS-TGVEIM-WNSPLGMMGV----YYG--- 759
H A+ D E SF+ + ++ + +GV Y
Sbjct: 271 ---TGHSQGLVTAVAIAETDSWE---SFFVSVRKAITVLFF------IGVRCYEAYPNTS 318
Query: 760 IP-------LRHREG 767
+P L + EG
Sbjct: 319 LPPSILEDSLENNEG 333
Score = 51.9 bits (124), Expect = 6e-07
Identities = 105/625 (16%), Positives = 173/625 (27%), Gaps = 285/625 (45%)
Query: 208 SHARLERVISIRTSGYFSFGKTDVYSKERMSFD---EEAIRAFYHDRGYAAVKVSSQVLF 264
SH LE V+ + T+ +F + S+ + F+ E F D
Sbjct: 12 SHGSLEHVLLVPTASFF------IASQLQEQFNKILPEPTEGFAAD-------------- 51
Query: 265 DKQKS---------GYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLL-----SLIRIRS 310
D+ + GYV ++ ++ + + L E + L +L
Sbjct: 52 DEPTTPAELVGKFLGYVS-SLVEPSKVGQFDQV-LNLCLTEFENCYLEGNDIHALA---- 105
Query: 311 GNLYNPQEIKESSEK--ISKYFFSGERPFVRVKTRINRDFAKRIVDIEYLID---QG-SP 364
L + K I Y + R F K+ L +G +
Sbjct: 106 AKLLQENDTTLVKTKELIKNYI--------TARIMAKRPFDKKSNSA--LFRAVGEGNAQ 155
Query: 365 LYVKRIEI---EGNDQSY-DSVIRRELELSE---------GDPINYSMIER----AKRRI 407
L I +GN Y + EL + GD I E + +
Sbjct: 156 LVA----IFGGQGNTDDYFE-------ELRDLYQTYHVLVGDLI-KFSAETLSELIRTTL 203
Query: 408 MATGYFSE-VNI-------SQLPAND------VS----------DYVI----LRVSVKQL 439
A F++ +NI S P D +S YV+ L + +L
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 440 ------SAG-SVGI--------ATNYE-----VDKGM------GVEGHIDDNNFFGQGY- 472
+ G S G+ ++E V K + GV + + Y
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY--------EAYP 315
Query: 473 RARLAA---------GFG------------RHAVQNY----------------------- 488
L G + VQ+Y
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375
Query: 489 TFSVEDPYFLGSPIS-AGFDLQKTHLE----DGSLDINDESAAVRMIVPITE---SISTS 540
V P P S G +L L LD + R +P +E S
Sbjct: 376 NLVVSGP-----PQSLYGLNL---TLRKAKAPSGLDQS------R--IPFSERKLKFSN- 418
Query: 541 FKYDLRFLQYGAISEKEKIP--SIY----TTLI-EHGKFSSHSISQS---I-IYNT---- 585
RFL ++ P S + LI + ++ S + I +Y+T
Sbjct: 419 -----RFL---PVA----SPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Query: 586 ----LDNPIVPRKGMLI----------------SSSY--DYAGFGGDSQY----HRI--- 616
L I R ++ +++ D+ G GG S HR
Sbjct: 467 DLRVLSGSISER---IVDCIIRLPVKWETTTQFKATHILDF-GPGGASGLGVLTHRNKDG 522
Query: 617 -GSRASYFYLLSDDSDIVGSLRFGY 640
G R +++ DI +G+
Sbjct: 523 TGVRV----IVAGTLDINPDDDYGF 543
Score = 39.2 bits (91), Expect = 0.004
Identities = 92/567 (16%), Positives = 167/567 (29%), Gaps = 249/567 (43%)
Query: 12 KRLLEKYFPRSFQMGFII-------LF----------YAIFGLSAVYGSNTSIVRRIEIR 54
K L++ Y LF AIFG
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG------------------ 161
Query: 55 GATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDSVLIIDLIERK 114
GQ +D + ++++Y Y VL+ DLI +
Sbjct: 162 ------------------GQGNTDDYFEE-LRDLYQT-Y----------HVLVGDLI-KF 190
Query: 115 IINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNA------DVHN-IK-------QAY 160
L + L R ++ ++ + Y
Sbjct: 191 SAETL-----SEL----------IR-----TTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 161 -AS-------IGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGNKNYSH--- 209
S IG ++++ H+ ++ L T ++ S G +S
Sbjct: 231 LLSIPISCPLIG----VIQLAHYVVTAKLLGFT-------PGELRS-YLKGATGHSQGLV 278
Query: 210 --ARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRA-FY-----HDRGYAAVKVSSQ 261
I+ S + SF + + +AI F+ + Y +
Sbjct: 279 TAV----AIAETDS-WESFFVS---VR-------KAITVLFFIGVRCY-EAYPNTSLPPS 322
Query: 262 VLFDKQKSGYVLIFQIDEGE---IYTVGNISIQSTLQE-IQK--KTL-------LSLIRI 308
+L D ++ EG + ++ N++ Q +Q+ + K L +SL+
Sbjct: 323 ILEDSLENN--------EGVPSPMLSISNLT-QEQVQDYVNKTNSHLPAGKQVEISLVNG 373
Query: 309 R-----SG---NLY----NPQEIKESSEK-ISKYFFSGER-------------PF----- 337
SG +LY ++ K S S+ FS ER PF
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS-ERKLKFSNRFLPVASPFHSHLL 432
Query: 338 VRVKTRINRDFAKRIVDIEYLIDQGS---PLYVKRIEIEGND-QSYD-SVIRRELELSEG 392
V IN+D K ++ + P+Y +G+D + S+ R ++
Sbjct: 433 VPASDLINKDLVKN--NVS--FNAKDIQIPVYDTF---DGSDLRVLSGSISERIVDCIIR 485
Query: 393 DPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQLSAGSVGIATNYEV 452
P+ + E +Q A + D+ S G +G+ T+
Sbjct: 486 LPVKW---ETT---------------TQFKATHILDFGPGGAS------G-LGVLTHRNK 520
Query: 453 DKGMGVE----GHID---DNNFFGQGY 472
D G GV G +D D+++ G+
Sbjct: 521 D-GTGVRVIVAGTLDINPDDDY---GF 543
Score = 33.4 bits (76), Expect = 0.19
Identities = 43/209 (20%), Positives = 78/209 (37%), Gaps = 54/209 (25%)
Query: 331 FSGERPFVRVKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELS 390
F GE+ RI +++ I E ++D L ++I E N+ S R E L
Sbjct: 1676 FGGEK-----GKRIRENYSAMI--FETIVD--GKLKTEKIFKEINEHSTSYTFRSEKGL- 1725
Query: 391 EGDPINYSMIERAKRRIMATGYFSEVNISQL-PAN------DVSDYVILRVSVKQLSAGS 443
++ + + +M F ++ L PA+ + +Y L +S S
Sbjct: 1726 ----LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIES 1781
Query: 444 VGIATNYEVDKGMGVEGHIDDNNFFGQGY------RARLAAGFGRHAVQ----------- 486
+ Y +GM ++ + + Y R+AA F + A+Q
Sbjct: 1782 LVEVVFY---RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG 1838
Query: 487 ------NYTFSVEDPYFLGSPISAGFDLQ 509
NY +VE+ + ++AG DL+
Sbjct: 1839 WLVEIVNY--NVENQQY----VAAG-DLR 1860
>3jz4_A Succinate-semialdehyde dehydrogenase [NADP+]; tetramer, NADP
binding, oxidoreductase; HET: NAP; 2.30A {Escherichia
coli}
Length = 481
Score = 30.4 bits (69), Expect = 1.6
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 18/63 (28%)
Query: 48 VRRIEIRGATNVGKEVI------LSRI--------PVVVGQSISDADLDHAVKNIYAMGY 93
VR++ G+T +G++++ + ++ P +V DADLD AV+
Sbjct: 225 VRKLSFTGSTEIGRQLMEQCAKDIKKVSLELGGNAPFIVF---DDADLDKAVEGA-LASK 280
Query: 94 FSN 96
F N
Sbjct: 281 FRN 283
>1e5e_A MGL, methionine gamma-lyase; methionine biosynthesis, PLP-dependent
enzymes, C-S gamma lyase, propargylglycine; HET: PPJ;
2.18A {Trichomonas vaginalis} SCOP: c.67.1.3 PDB:
1e5f_A*
Length = 404
Score = 28.0 bits (62), Expect = 8.9
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 233 SKERMSFDEEAIRAFYHDRGYAAVKV----SSQVLFDKQKSGYVLIFQIDEGEIYT 284
+ ERM+ I A + A +S +FD + G + G IYT
Sbjct: 2 AHERMTPATACIHANPQKDQFGAAIPPIYQTSTFVFDNCQQGGNRFAGQESGYIYT 57
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.138 0.390
Gapped
Lambda K H
0.267 0.0482 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 6,755,352
Number of extensions: 328131
Number of successful extensions: 1036
Number of sequences better than 10.0: 1
Number of HSP's gapped: 995
Number of HSP's successfully gapped: 33
Length of query: 781
Length of database: 5,693,230
Length adjustment: 100
Effective length of query: 681
Effective length of database: 3,268,830
Effective search space: 2226073230
Effective search space used: 2226073230
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (27.9 bits)