RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780525|ref|YP_003064938.1| flagellar hook protein FlgE
[Candidatus Liberibacter asiaticus str. psy62]
(421 letters)
>3a69_A Flagellar HOOK protein FLGE; the bacterial flagellar motor,
universal joint, bacterial flagellum, motor protein;
7.10A {Salmonella enterica subsp}
Length = 402
Score = 222 bits (567), Expect = 9e-59
Identities = 100/416 (24%), Positives = 180/416 (43%), Gaps = 15/416 (3%)
Query: 6 SMKTAMSGMDAQSNRVSAVSDNIANVDTVGYKRTAIAFSSLVFPSTSNSYVSGGLEISTK 65
S A+SG++A + + + +NIAN T G+K +F+ + + S V G++++
Sbjct: 1 SFSQAVSGLNAAATNLDVIGNNIANSATYGFKSGTASFADMF----AGSKVGLGVKVAGI 56
Query: 66 DMISEQGSLMHTASNTDLAIQGKGFFIVKGRDNVNCLTRAGDFHINNEGFLENVAGGVLL 125
G+ +T D+AI GFF + + +R G F ++ L N+ G L
Sbjct: 57 TQDFTDGTTTNTGRGLDVAISQNGFFRLVDSNGSVFYSRNGQFKLDENRNLVNMQGMQLT 116
Query: 126 GYPLKNASAPLIVNSFQGLERINVKHAELSAMPTTTGFISNNLDKNATIITPDKTPKHNG 185
GYP P + I + + ++A TTT + NL+ + P KTP
Sbjct: 117 GYPATGT--PPTIQQGANPAPITIPNTLMAAKSTTTASMQINLNSTDPV--PSKTPFSVS 172
Query: 186 RDAEYTHKSSFAAYDTLGSSVVYDVYYTKTGDKKWEVSIFRQDQSTNNSFPYNVAPLNTV 245
Y K + YD+ G++ +VY+ KT D +W V ++ +
Sbjct: 173 DADSYNKKGTVTVYDSQGNAHDMNVYFVKTKDNEWAVYTH-----DSSDPAATAPTTAST 227
Query: 246 EVSFDPVTGYLANSSHKAISFNDNTSGIDQQITIDISKTT-QLAGGFIPQKSEINGHAPG 304
+ F+ G L + I+ ++ + Q G + NG+ PG
Sbjct: 228 TLKFNE-NGILESGGTVNITTGTINGATAATFSLSFLNSMQQNTGANNIVATNQNGYKPG 286
Query: 305 KPKDFSVSKDGYVDIIYDDGTRVPIYRLAIATVPSEDNLKLFDGNTYLPTRDSGDISIGF 364
+ ++ DG V Y + + ++ +A + + L N + T+ SG +G
Sbjct: 287 DLVSYQINNDGTVVGNYSNEQEQVLGQIVLANFANNEGLASQGDNVWAATQASGVALLGT 346
Query: 365 PGHNQHGEIFSGALETANVDIASELTELIEAQRNYAVNSKVFQTGSDFMDILISLK 420
G G++ +GALE +NVD++ EL +I AQRNY N++ +T ++ L++L+
Sbjct: 347 AGSGNFGKLTNGALEASNVDLSKELVNMIVAQRNYQSNAQTIKTQDQILNTLVNLR 402
>1wlg_A Flagellar HOOK protein FLGE; EAR-& motif, structural protein; 1.80A
{Salmonella typhimurium} SCOP: b.152.1.1 PDB: 2bgy_A
2bgz_A
Length = 299
Score = 158 bits (401), Expect = 2e-39
Identities = 73/306 (23%), Positives = 122/306 (39%), Gaps = 11/306 (3%)
Query: 82 DLAIQGKGFFIVKGRDNVNCLTRAGDFHINNEGFLENVAGGVLLGYPLKNASAPLIVNSF 141
D+AI GFF + + +R G F ++ L N+ G L GYP P +
Sbjct: 3 DVAISQNGFFRLVDSNGSVFYSRNGQFKLDENRNLVNMQGMQLTGYPA--TGTPPTIQQG 60
Query: 142 QGLERINVKHAELSAMPTTTGFISNNLDKNATIITPDKTPKHNGRDAEYTHKSSFAAYDT 201
I + + ++A TTT + N N+T P KTP Y K + YD+
Sbjct: 61 ANPAPITIPNTLMAAKSTTTASMQIN--LNSTDPVPSKTPFSVSDADSYNKKGTVTVYDS 118
Query: 202 LGSSVVYDVYYTKTGDKKWEVSIFRQDQSTNNSFPYNVAPLNTVEVSFDPVTGYLANSSH 261
G++ +VY+ KT D +W + ++S P AP G L +
Sbjct: 119 QGNAHDMNVYFVKTKDNEW------AVYTHDSSDPAATAPTTASTTLKFNENGILESGGT 172
Query: 262 KAISFNDNTSGIDQQITIDIS-KTTQLAGGFIPQKSEINGHAPGKPKDFSVSKDGYVDII 320
I+ ++ Q G + NG+ PG + ++ DG V
Sbjct: 173 VNITTGTINGATAATFSLSFLNSMQQNTGANNIVATNQNGYKPGDLVSYQINNDGTVVGN 232
Query: 321 YDDGTRVPIYRLAIATVPSEDNLKLFDGNTYLPTRDSGDISIGFPGHNQHGEIFSGALET 380
Y + + ++ +A + + L N + T+ SG +G G G++ +GALE
Sbjct: 233 YSNEQEQVLGQIVLANFANNEGLASQGDNVWAATQASGVALLGTAGSGNFGKLTNGALEA 292
Query: 381 ANVDIA 386
+NVD++
Sbjct: 293 SNVDLS 298
>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 = 46.5 bits (110), Expect = 1e-05
Identities = 63/359 (17%), Positives = 105/359 (29%), Gaps = 148/359 (41%)
Query: 5 GSMKTAMSGMDAQSNR-VSAVSDNIANVDTVG--YK--RTAIA--F-----SSLVFPSTS 52
G +++ + G S V+AV+ IA D+ + R AI F +P+TS
Sbjct: 261 GELRSYLKGATGHSQGLVTAVA--IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 53 NSYVSGGLEIST-KDMISEQG----SLMHTASNTDLAIQG-------KGFFIVKGRDNVN 100
L S +D + E S M L+I ++ + N
Sbjct: 319 -------LPPSILEDSL-ENNEGVPSPM-------LSISNLTQEQVQD--YV----NKTN 357
Query: 101 C-LTRAGDFHI-----NNEGFLENVAGGVLLGYP---------LKNASAPLIVNSFQGLE 145
L + N +N+ V+ G P L+ A AP GL+
Sbjct: 358 SHLPA--GKQVEISLVNGA---KNL---VVSGPPQSLYGLNLTLRKAKAP------SGLD 403
Query: 146 --RI-------NVKHAELSAMPTTTGFISNNLDKNATIITPDKTPKHNGRDAEYTHKSSF 196
RI + L P + F S+ L + +I
Sbjct: 404 QSRIPFSERKLKFSNRFL---PVASPFHSHLLVPASDLI-----------------NKDL 443
Query: 197 AAYDTL--GSSVVYDVYYTKTG-DKKWEVSIFRQDQSTNNSFPYNVAPLNTVEVSFDPV- 252
+ + VY T G D R +++ + PV
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSD-------LRVLSG-------SISERIVDCIIRLPVK 489
Query: 253 ----TGYLANSSHKAISF------------NDNTSGIDQQI----TIDISKTTQLAGGF 291
T + ++H + F + N G ++ T+DI+ GF
Sbjct: 490 WETTTQF--KATH-ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY--GF 543
Score = 45.3 bits (107), Expect = 3e-05
Identities = 79/462 (17%), Positives = 129/462 (27%), Gaps = 201/462 (43%)
Query: 17 QSNRVSAVSDNIANVDTV--------GYKRTAIAFSSL--VFPSTSNSYVSGGLEISTKD 66
S AV + A + + Y F L ++ T + V D
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDY------FEELRDLY-QTYHVLV--------GD 186
Query: 67 MISEQGS-LMHTASNTDLA--IQGKGFFIVK---GRDNVNCLTRAG-DFHINNEGFLENV 119
+I L T A + +G I++ D+
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS-----NTPDKDY----------- 230
Query: 120 AGGVLLGYPLKNASAPLIVNSFQGLERINVKH------------AEL-SAMPTTTG---- 162
LL P+ S PLI G+ I + H EL S + TG
Sbjct: 231 ----LLSIPI---SCPLI-----GV--IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG 276
Query: 163 FISNNLDKNATIITPDKTPKH---NGRDA-E---YTHKSSFAAY--DTLGSSVVYDVYYT 213
++ A I + + + R A + + AY +L S++
Sbjct: 277 LVT------AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL------ 324
Query: 214 KTGDKKWEVSIFRQDQSTNN-SFP---YNVA--PLNTVEVSFDPVTGYLANSSHKAISFN 267
+D NN P +++ V+ + +L IS
Sbjct: 325 -------------EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 268 DNTSGIDQQITIDISKTTQLAGGFIPQKS--EINGH-----APGKPKDFSVSKDGYVDII 320
N + + + +G P +S +N AP
Sbjct: 372 -NG---AKNLVV--------SG---PPQSLYGLNLTLRKAKAPSGL-------------- 402
Query: 321 YDDGTRVPIYRLAIATVPSEDNLKLFDGNTYLPTRDSGDISIGFPGHNQHGEIFSGALET 380
D +R+P SE LK N +LP + P H+ L
Sbjct: 403 --DQSRIPF---------SERKLKFS--NRFLP--------VASPFHSHL-------LVP 434
Query: 381 ANVDIASELTELIE---AQRNYAVNSK-----VFQT--GSDF 412
A ++LI + N + N+K V+ T GSD
Sbjct: 435 A--------SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Score = 31.1 bits (70), Expect = 0.51
Identities = 46/251 (18%), Positives = 87/251 (34%), Gaps = 72/251 (28%)
Query: 209 DVYYT-KTGDKKWEVSIFRQDQSTNNSFPYNVA------PLNTVEVSFDPVTGYLANSSH 261
D+Y T K W R D +++ +++ P+N + + F G ++
Sbjct: 1634 DLYKTSKAAQDVWN----RADNHFKDTYGFSILDIVINNPVN-LTIHFGGEKGKRIRENY 1688
Query: 262 KAISFNDNTSG----------IDQQIT----------IDISKTTQLA------------- 288
A+ F G I++ T + ++ TQ A
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK 1748
Query: 289 -GGFIPQKSEINGHAPGKPKDFS-----VSKDGYVDIIYDDGTRVPIYRLAIATVPSEDN 342
G IP + GH+ G+ + +S + V++++ G + + VP ++
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQV------AVPRDE- 1801
Query: 343 LKLFDGNTYLPTRDSGDISIGFPGHNQHGEIFSG-ALETANVDIASELTELIEAQRNYAV 401
L + G I+I PG + FS AL+ + L+E NY V
Sbjct: 1802 ---------LGRSNYGMIAIN-PG--RVAASFSQEALQYVVERVGKRTGWLVEIV-NYNV 1848
Query: 402 NSKVFQTGSDF 412
++ + D
Sbjct: 1849 ENQQYVAAGDL 1859
>1h0b_A Cellulase; endoglucanase, hydrolase; HET: EPE; 1.8A {Rhodothermus
marinus} SCOP: b.29.1.11
Length = 256
Score = 30.7 bits (69), Expect = 0.61
Identities = 26/186 (13%), Positives = 46/186 (24%), Gaps = 29/186 (15%)
Query: 218 KKWEVSIFRQDQSTNNSFPYNVAPLNTVEVSFDPVTGYLANSSHKAISF---NDNTSGID 274
W ++N+ P V L+ V S+ + A SG
Sbjct: 66 CHWGAC------TSNSGLPRRVQELSDVRTSWTLTPITTGR-WNAAYDIWFSPVTNSGNG 118
Query: 275 QQITIDISKTTQLAGGFIPQKSEINGHAPGKPKDFSVSKDGYVDIIYDDGTRVPIYRLAI 334
++ GG +P S + +V G ++ I
Sbjct: 119 YSGGAELMIWLNWNGGVMPGGSRVA----------TVELAGATWEVW----YADWDWNYI 164
Query: 335 ATVPSEDN-----LKLFDGNTYLPTRDSGDISIGFPGHNQHGEIFSGALETANVDIASEL 389
A + L L R E++ G + D + +
Sbjct: 165 AYRRTTPTTSVSELDLKAFIDDAVARGYIRPEWYLHAVETGFELWEGGAGLRSADFSVTV 224
Query: 390 TELIEA 395
+L A
Sbjct: 225 QKLAAA 230
>2h88_B Succinate dehydrogenase IP subunit; complex II, membrane protein,
heme protein, iron sulfur protein, oxidoreductase, redox
enzyme; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB:
1yq4_B* 1yq3_B* 2fbw_B* 2h89_B* 1zoy_B* 1zp0_B*
Length = 252
Score = 30.1 bits (67), Expect = 0.92
Identities = 21/129 (16%), Positives = 34/129 (26%), Gaps = 12/129 (9%)
Query: 221 EVSIFRQDQSTNNSFPYNVAPLNTVEVSFDP-------VTGYLANSSHKAISFNDNTS-G 272
+ SI+R D P + T EV + + N ++F + G
Sbjct: 13 KFSIYRWDPDKPGDKPR----MQTYEVDLNKCGPMVLDALIKIKNELDSTLTFRRSCREG 68
Query: 273 IDQQITIDISKTTQLAGGFIPQKSEINGHAPGKPKDFSVSKDGYVDIIYDDGTRVPIYRL 332
I ++I+ LA V KD D+ I
Sbjct: 69 ICGSCAMNIAGGNTLACTKKIDPDLSKTTKIYPLPHMYVVKDLVPDLSNFYAQYKSIEPY 128
Query: 333 AIATVPSED 341
S+
Sbjct: 129 LKKKDESKQ 137
>1orv_A Dipeptidyl peptidase IV; serine protease, mechanism, oxyanion HOLE,
substrate channeling, drug design, diabetes mellitus,
hydrolase; HET: NAG BMA; 1.80A {Sus scrofa} SCOP:
b.70.3.1 c.69.1.24 PDB: 1orw_A* 2aj8_A* 2ajb_A* 2ajc_A*
2ajd_A* 2bua_A* 2buc_A* 2jid_A* 2bgr_A* 1wcy_A* 1j2e_A*
2qjr_A* 3f8s_A* 2rgu_A* 1tk3_A* 1n1m_A* 1nu8_A* 1rwq_A*
1nu6_A* 1tkr_A* ...
Length = 728
Score = 30.1 bits (66), Expect = 0.99
Identities = 24/143 (16%), Positives = 43/143 (30%), Gaps = 8/143 (5%)
Query: 210 VYYTKTGDKKWEVS----IFRQDQSTNNSFPYNVAPLNTVEVSFDPVTGYLANSSHKAIS 265
+ + K+W S D + P NT +++ PV LA + I
Sbjct: 76 ILFEYNYVKQWRHSYTASYDIYDLNKRQLITEERIPNNTQWITWSPVGHKLAYVWNNDIY 135
Query: 266 FNDNTSGIDQQITIDISKTTQLAGGFIPQKSEINGHAPGKPKDFSVSKDG-YVDIIYDDG 324
+ + Q+IT + G E S +G ++ +
Sbjct: 136 VKNEPNLSSQRITWTGKENVIYNGVTDWVYEE---EVFSAYSALWWSPNGTFLAYAQFND 192
Query: 325 TRVPIYRLAIATVPSEDNLKLFD 347
T VP+ + + S K
Sbjct: 193 TEVPLIEYSFYSDESLQYPKTVR 215
>1z68_A Fibroblast activation protein, alpha subunit; seprase, fibroblast
activation protein alpha,fapalpha,
dipeptidylpeptidase,S9B; HET: NAG NDG; 2.60A {Homo
sapiens}
Length = 719
Score = 29.8 bits (65), Expect = 1.4
Identities = 23/131 (17%), Positives = 37/131 (28%), Gaps = 10/131 (7%)
Query: 210 VYYTKTGDKKWEVS----IFRQDQSTNNSFPYNVAPLNTVEVSFDPVTGYLANSSHKAIS 265
VY K W S + D S N P + + PV LA I
Sbjct: 74 VYLESDYSKLWRYSYTATYYIYDLSNGEFVRGNELPRPIQYLCWSPVGSKLAYVYQNNIY 133
Query: 266 FNDNTSGIDQQITIDISKTTQLAGGF-IPQKSEINGHAPGKPKDFSVSKDG-YVDIIYDD 323
QIT + + G + E+ S +G ++ +
Sbjct: 134 LKQRPGDPPFQITFNGRENKIFNGIPDWVYEEEMLATKYA----LWWSPNGKFLAYAEFN 189
Query: 324 GTRVPIYRLAI 334
T +P+ +
Sbjct: 190 DTDIPVIAYSY 200
>2iqh_A Nucleocapsid protein; oligomerization, RNA binding, NLS, polymerase
binding, viral protein; 3.20A {Influenza a virus} SCOP:
e.75.1.1 PDB: 2wfs_A 2q06_A
Length = 499
Score = 26.9 bits (59), Expect = 9.1
Identities = 26/99 (26%), Positives = 43/99 (43%), Gaps = 7/99 (7%)
Query: 17 QSNRVSAVSDNIANVDTVGYKRTAIAFSSLVFPSTSNSYVSGGLEISTKDMISEQGSLMH 76
+N+ A S I+ T +R + F T + +G E T DM +E LM
Sbjct: 388 NTNQQRASSGQISIQPTFSVQRN-LPFDR----PTIMAAFTGNTEGRTSDMRTEIIRLME 442
Query: 77 TASNTDLAIQGKGFFIVKGRDNVNCLTRAGDFHINNEGF 115
+A D++ QG+G F + + + F ++NEG
Sbjct: 443 SARPEDVSFQGRGVFELSDEKATSPIVP--SFDMSNEGS 479
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
0.314 0.131 0.371
Gapped
Lambda K H
0.267 0.0638 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,336,715
Number of extensions: 148566
Number of successful extensions: 282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 277
Number of HSP's successfully gapped: 17
Length of query: 421
Length of database: 5,693,230
Length adjustment: 95
Effective length of query: 326
Effective length of database: 3,390,050
Effective search space: 1105156300
Effective search space used: 1105156300
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.3 bits)