RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780695|ref|YP_003065108.1| flagellar MS-ring protein
[Candidatus Liberibacter asiaticus str. psy62]
(563 letters)
>gnl|CDD|180348 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
Length = 542
Score = 390 bits (1005), Expect = e-109
Identities = 159/558 (28%), Positives = 278/558 (49%), Gaps = 39/558 (6%)
Query: 3 ILDQLLQFFKSGTSLGRTRILILASVILVPIMLFMAARFFVNSPHYDNLYVKLEVSDVNR 62
++++L +F + L + R + L + +A + + P Y LY L D +
Sbjct: 8 LMEKLKEFLQK---LSKKRKIALIGAGAAVVAAIVALVLWASRPDYRVLYSNLSDQDAGQ 64
Query: 63 ISVALSEANIDFRISDNGSSISVPSSMVGKARIHLAAQGLPSSSSNSGYELFDKVNSFGL 122
I AL +A I ++++D+G +I VP+ V + R+ LA++GLP S S GYELFDK + FG+
Sbjct: 65 IVAALDQAGIPYKVADDGGTILVPADKVDELRLKLASEGLPKSGS-VGYELFDKSSGFGI 123
Query: 123 TSFMQEITRVRALEGEIARTIQSISGIVAARVHIVMPDMGSFRKIGARPTASVMI----- 177
T F +++ RALEGE+ARTI+S+ G+ AARVH+ +P F + P+ASV++
Sbjct: 124 TQFEEQVNYQRALEGELARTIESLDGVKAARVHLALPKESVFVREQQPPSASVVLTLKPG 183
Query: 178 RAINPSVYKSAEAIRHLVAAAVPNLDMGDVTVLDSTGKLLT--ANEMERNILGKSLSIVQ 235
RA++P + +AI HLVA+AVP L +VT++D G+LL+ +++ ++ K L Q
Sbjct: 184 RALDP---EQVKAIVHLVASAVPGLKPENVTIVDQNGRLLSDGSDDSASDLAEKQLKYKQ 240
Query: 236 AIQHEIEMNINKALAAFLGVDNFRSAVVAELNMDTQQIREIVYDPDSKVERSIRLSKDAQ 295
++ ++ I LA LG N R+ V A+L+ D + E YDP+ V RS + ++
Sbjct: 241 QVEKRLQQRIESILAPILGPGNVRAQVTADLDFDKVEQTEETYDPNQGVVRSEQTVEETS 300
Query: 296 RSETSQPESAVTVEQNMPHVSDRKVPLPRSLENTDKKEEQSNYEINTKSIATTHDNYKLE 355
+ P N P + S ++ + EE +NYE++ T ++
Sbjct: 301 TGQGGNPGGVPGALSNQPPNQAQGADGGNSTSSSSRSEETTNYEVDKTISHTKKQPGTVK 360
Query: 356 RLSIAVVVNKGRLTEVLGRSADQGKIDSYLAEINKIVSAATGINSRRGDTITITSMDFLE 415
RLS+AVVV+ L + G Q D LA+I K+V +A G +++RGD++ + ++ F E
Sbjct: 361 RLSVAVVVDGKPLADGDGEVEYQPLSDEELAQIEKLVRSAVGFDAKRGDSVNVVNVPFDE 420
Query: 416 NQLFNSGTV----QVSFMDILSRHFATVINALVFLVGTLLVTFLGLHALRRLHNIDDAKK 471
+ + Q FMD+ + A L+ +L+ F+ LR L ++ +
Sbjct: 421 EAEEEAAELPFWQQPWFMDL-------IKLAAGALLILILIFFVLRPRLRPLLPEEELAE 473
Query: 472 GEVGGKSILSPPPISSAVTTGLMPNDNIALDSSNQDIFSHSRNLQSRINSYVSKQSDLRL 531
E + +A+ L ++ + + + +++ + RL
Sbjct: 474 EEAAAEEAALEEDEEAALEVELSDDEELEEEKAEEEL--------------KYEDLLKRL 519
Query: 532 LHMIEINEERFAKILRKW 549
+ + + E A++LR W
Sbjct: 520 RELAKEDPEEVAQVLRTW 537
>gnl|CDD|180873 PRK07193, fliF, flagellar MS-ring protein; Reviewed.
Length = 552
Score = 194 bits (496), Expect = 4e-50
Identities = 130/435 (29%), Positives = 212/435 (48%), Gaps = 52/435 (11%)
Query: 2 AILDQLLQFFKSGTSLGRTR----ILILASVILVPIMLFMAARFFVNSPHYDNLYVKLEV 57
+LD+L Q + L R + +LA ++ I+L + + +S Y LY E
Sbjct: 7 DMLDKLKQKWSPFQLLRGNRKLILLALLALLVAAAIVLSL----WRSSQGYRPLYGSQEN 62
Query: 58 SDVNRISVALSEANIDFRISDNGSSISVPSSMVGKARIHLAAQG----LPSSSSNSGYEL 113
+++ L I +RI + + VP +GKAR+ LAA+G LPS G EL
Sbjct: 63 VPTSQVVEVLEAEGISYRIDPDSGQVLVPEDQLGKARMLLAAKGVKAKLPS-----GLEL 117
Query: 114 FDKVNSFGLTSFMQEITRVRALEGEIARTIQSISGIVAARVHIVMPDMGSF-RKIGARPT 172
DK + G + FMQ + R+LEGE+A++I ++ + +ARVH+ +P SF R+ P+
Sbjct: 118 LDKDSPLGTSQFMQNVRYRRSLEGELAQSIMALDAVESARVHLAIPKSSSFVRQDPELPS 177
Query: 173 ASVMI-----RAINPSVYKSAEAIRHLVAAAVPNLDMGDVTVLDSTGKLLTAN-EMERNI 226
ASV++ + ++P EAI +LVA +VP L +V+V+D G LL+A +
Sbjct: 178 ASVVLRLKPGQKLSPE---QVEAIVNLVAGSVPGLKPANVSVVDQHGNLLSAGINANGDG 234
Query: 227 LG---KSLSIVQAIQHEIEMNINKALAAFLGVDNFRSAVVAELNMD-TQQIREIVYDPDS 282
K L Q ++ N L LG NFR +V A+++ ++ RE Y P
Sbjct: 235 SQASKKQLEYAQELEQSTIKNAASMLTPVLGPGNFRVSVAADVDFSRVEETREH-YGPAP 293
Query: 283 KVERSIRLSKDAQRSETSQPESAVTVEQNMPHVSDRKVPLPRSLENTD----KKEEQSNY 338
V + + E S + A+ + ++ S+R P + +N D + E Y
Sbjct: 294 VV------TNENTSQENSNDDMALGIPGSL---SNRPPPQSTAGQNPDARNLRSESSRQY 344
Query: 339 EINTKSIATTHDNYKLERLSIAVVVNKGRLTEVLGRSADQGKIDSYLAEINKIVSAATGI 398
+ T + +LE+LS+AVV+NK G + +Q LA++ +V A GI
Sbjct: 345 AYDRSVRHTRYQQGQLEKLSVAVVLNKAAAPLK-GWTPEQ------LAQLKAMVEDAAGI 397
Query: 399 NSRRGDTITITSMDF 413
++ RGD++TI+S DF
Sbjct: 398 DAARGDSLTISSFDF 412
>gnl|CDD|129310 TIGR00206, fliF, flagellar basal-body M-ring protein/flagellar
hook-basal body protein (fliF). Component of the M
(cytoplasmic associated) ring, one of four rings
(L,P,S,M) which make up the flagellar hook-basal body
which is a major portion of the flagellar organelle.
Although the basic structure of the flagella appears to
be similar for all bacteria, additional rings and
structures surrounding the basal body have been observed
for some bacteria (eg Vibrio cholerae and Treponema
pallidum).
Length = 555
Score = 173 bits (440), Expect = 1e-43
Identities = 141/560 (25%), Positives = 239/560 (42%), Gaps = 69/560 (12%)
Query: 23 LILASVILVPIMLFMAARFFVNSPHYDNLYVKLEVSDVNRISVALSEANIDFRISDNGSS 82
LILA ++ ++F+ F S Y L+V+L D+ RIS L + N+ + +S +G
Sbjct: 27 LILAGFAIIAALVFLIL-FATKSQSYALLFVELSDQDLGRISQRLDQENVPYFLSSDGRI 85
Query: 83 ISVPSSMVGKARIHLAAQGLPSSSSNSGYELFDKVNSFGLTSFMQEITRVRALEGEIART 142
I VP V + R LA +GLP + G+ELFD + FG+T F + I RA+EGE++RT
Sbjct: 86 ILVPEDKVKELRAILAREGLPKTGMV-GFELFD-QDRFGITDFERSINLRRAIEGELSRT 143
Query: 143 IQSISGIVAARVHIVMPDMGSFRKIGARPTASVMI-----RAINPSVYKSAEAIRHLVAA 197
I+++ + AA VH+ MP F + P+ASV + ++ + E + HL++
Sbjct: 144 IEALDPVKAASVHLAMPKDALFVEEQEPPSASVRLTLRPGSDLDTN---QIEGLVHLISY 200
Query: 198 AVPNLDMGDVTVLDSTGKLLTANEME----RNILGKSLSIVQAIQHEIEMNINKALAAFL 253
AVP L+ ++ ++D G +L + ++ ++ K L ++ ++ I+ L+ +
Sbjct: 201 AVPGLESDNIAIVDQNGTILNDSNLDGIDRIDLAEKQLKYKSKVEAMLQGEIDSILSPIV 260
Query: 254 GVDNFRSA-VVAELNMDTQQIREIVYDP------DSKVERSIRLSKDAQRSETSQPESAV 306
GVDNF A V A+L+ + E Y P DS + S ++ Q S
Sbjct: 261 GVDNFVVARVNAKLDFSKETTTEEEYAPNELESSDSTIRSSQTQEEEYQGQGYSPGGVPG 320
Query: 307 TVEQNMPHVSDRKVPLPRSLENTDKKEEQ-----------SNYEINTKSIATTHDNYKLE 355
P V D K +NT EE NYE+ +
Sbjct: 321 QESNTPPPVQDLK-------DNTGNYEESQYEKNVQLNEKKNYEVKRTIREIKVSLGIVV 373
Query: 356 RLSIAVVVN-KGRLTEVLGRSADQGK--IDSYLAEINKIVSAATGINSRRGDTITITSMD 412
L AVVV+ KG G++ + K + I ++ +A G + RGD+IT+ ++
Sbjct: 374 DLIWAVVVDEKGDFVLPDGKNKREYKPLSLEEIKNIEDLLQSAFGYSPERGDSITVRNIS 433
Query: 413 FLENQLFNSGTVQVSFMD---ILSRHFATVINALVFLVGTLLVTFLGLHALRRLHNIDDA 469
F N++ N ++ ++ L I LV +V ++ + RR ++
Sbjct: 434 F--NRINNFREIEENYFASQRFLDFLTIASIVFLVLIVAFIIFFKIIRPLERRRREREEE 491
Query: 470 KKGEVGGKSILSPPPISSAVTTGLMPNDNIALDSSNQDIFSHSRNLQSRINSYVSKQSDL 529
+ + + I LD +L IN + S+
Sbjct: 492 LAKQAH----------LREEQEDEVEGELIKLD-----------DLVGGINEGDEEVSNA 530
Query: 530 RLLHMIEINEERFAKILRKW 549
L M + E AK++R W
Sbjct: 531 ELRAMAKEKPEDVAKLIRTW 550
>gnl|CDD|183757 PRK12800, fliF, flagellar MS-ring protein; Reviewed.
Length = 574
Score = 135 bits (340), Expect = 4e-32
Identities = 131/568 (23%), Positives = 252/568 (44%), Gaps = 36/568 (6%)
Query: 9 QFFKSGTSLGRTRILILASVILVPIMLFMAARFFVNSPHYDNLYVKLEVSDVNRISVALS 68
Q+F SL TR L + ++I + + +A F+ P Y +LY L+ + L
Sbjct: 19 QWFDRVRSLQITRKLTMMAMIALAVAAGLAVFFWSQKPGYQSLYTGLDEKGNAEAADLLR 78
Query: 69 EANIDFRISDNGSSISVPSSMVGKARIHLAAQGLPSSSSNSGYELFDKVNSFGLTSFMQE 128
A I F+I +ISVP + AR+ LA GL + G+EL +K FG++ F++
Sbjct: 79 TAQIPFKIDQGTGAISVPQDRLYDARLKLAGSGLTGKETGGGFELMEKDPGFGVSQFVEN 138
Query: 129 ITRVRALEGEIARTIQSISGIVAARVHIVMPDMGSFRKIGARPTASVM--IRAINPSVYK 186
ALE E++RTI ++ + ARVH+ +P +F + +ASV+ +R
Sbjct: 139 ARYQHALETELSRTIGTLRPVREARVHLAIPKPSAFTRQRDVASASVVLELRGGQGLERN 198
Query: 187 SAEAIRHLVAAAVPNLDMGDVTVLDSTGKLLTANEMERNILGKSLSIVQAIQHEIEMN-- 244
+AI +LVA+++P++ VTV+D +G++L+ + + + Q + E N
Sbjct: 199 QVDAIVNLVASSIPDMTPERVTVVDQSGRMLSIADPNSDAAQHAAQFEQVRRQESSYNQR 258
Query: 245 INKALAAFLGVDNFRSAVVAELNMD-TQQIREIVYDPDSKVERSIRLSKDA--------- 294
I + L G V +++ ++ RE+ Y+ + RS ++S +
Sbjct: 259 IRELLEPMTGPGRVNPEVSVDMDFSVVEEAREL-YNGEPAKLRSEQVSDTSTSATGPQGP 317
Query: 295 ----QRSETSQPESAVTVEQNMPHVSDRKVPLPRSLENTDKKEEQSNYEINTKSIATTHD 350
S P A P ++ + + + K + NYE++ T
Sbjct: 318 PGATSNSPGQPPAPAAAGAPGTPAAANGQAAAAAAPTESSKSATR-NYELDRTLQHTRQP 376
Query: 351 NYKLERLSIAVVVNKGRLTEVLGRSADQGKIDSYLAEINKIVSAATGINSRRGDTITITS 410
+++R+S+AV+++ G+ +Q + L I +V A G ++ RGDT+++ +
Sbjct: 377 AGRIKRVSVAVLLDNVPRPGAKGKMVEQPLTAAELTRIEGLVKQAVGFDAARGDTVSVMN 436
Query: 411 MDFLENQLFNSGTVQVSFMDILSRHFATVINALVFLVGTLLVTFLGLH----ALRRLHNI 466
F+ + +G + + V N L LVG ++V L LR+L +
Sbjct: 437 APFVREAV--AGEEGPKWWED-----PRVQNGLRLLVGAVVVLALLFGVVRPTLRQLTGV 489
Query: 467 DDAKKGEVGGKSILSPPPISSAVTTGLMPNDNIALDSSNQDIFSHSRNLQSRINSYVSKQ 526
K+ + G + +P + ++ +D+ L +D S ++ + I + +
Sbjct: 490 TPVKEKQKKGGNDGTP----QSADVRMVDDDDDLLPRLGEDTASIGQDKKLAIALPDAYE 545
Query: 527 SDLRLL-HMIEINEERFAKILRKWARSE 553
+RL ++ + +R A++++ W SE
Sbjct: 546 ERMRLAREAVKADSKRVAQVVKGWVASE 573
>gnl|CDD|149415 pfam08345, YscJ_FliF_C, Flagellar M-ring protein C-terminal. This
domain is found in bacterial flagellar M-ring (FliF)
proteins together with the YscJ/FliF domain (pfam01514).
Length = 162
Score = 128 bits (325), Expect = 3e-30
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 3/165 (1%)
Query: 249 LAAFLGVDNFRSAVVAELNMDTQQIREIVYDPDSKVERSIRLSKDAQRSETSQPESAVTV 308
L +G N R V A+L+ D + E YDP+ V RS + S++ + + V
Sbjct: 1 LEPVVGPGNVRVQVTADLDFDKVEQTEETYDPNGGVVRSEQTSEE-SSTGSGAAGGVPGV 59
Query: 309 EQNMPHVSDRKVPLPRSLENTDKKEEQSNYEINTKSIATTHDNYKLERLSIAVVVNKGRL 368
N+P P + + EE NYE++ T K++RLS+AVVV+ +
Sbjct: 60 LSNLPPA-PATAPGGNGSSTSSRSEETRNYEVSRTVRHTVQAPGKIKRLSVAVVVDGVYV 118
Query: 369 TEVLGRSADQGKIDSYLAEINKIVSAATGINSRRGDTITITSMDF 413
G++A + LA+I +V +A G ++ RGD++T+ SM F
Sbjct: 119 VA-DGKAAYVPRSPEELAQIEALVKSAVGFDAARGDSVTVVSMPF 162
>gnl|CDD|162912 TIGR02544, III_secr_YscJ, type III secretion apparatus lipoprotein,
YscJ/HrcJ family. All members of this protein family
are predicted lipoproteins with a conserved Cys near the
N-terminus for cleavage and modification, and are part
of known or predicted type III secretion systems.
Members are found in both plant and animal pathogens,
including the obligately intracellular chlamydial
species and (non-pathogenic) root nodule bacteria. The
most closely related proteins outside this family are
examples of the flagellar M-ring protein FliF.
Length = 193
Score = 82.3 bits (204), Expect = 3e-16
Identities = 50/169 (29%), Positives = 81/169 (47%), Gaps = 11/169 (6%)
Query: 49 DNLYVKLEVSDVNRISVALSEANID---FRISDNGSSISVPSSMVGKARIHLAAQGLPSS 105
D LY L + N + L ID G +ISV S +A L GLP
Sbjct: 20 DLLYSGLSEREANEMLAVLMRHGIDAEKEGSGKGGYTISVEESDFARAVELLRQYGLPRQ 79
Query: 106 SSNSGYELFDKVNSFGLTSFMQEITR-VRALEGEIARTIQSISGIVAARVHIVMPDMGSF 164
+ ELF K + ++S +E R + A+E + +T+ I G+++ARVH+V+P+ +
Sbjct: 80 RFVNLGELFPK-DGL-VSSPQEERARYLYAIEQRLEQTLSQIDGVISARVHVVLPENDNN 137
Query: 165 RKIGARPTASVMIR---AINPSVYKSAEAIRHLVAAAVPNLDMGDVTVL 210
+ +ASV I+ +N I+ LVA ++P LD +V+V+
Sbjct: 138 GRPKKPSSASVFIKYRPGLNLDALIP--KIKRLVANSIPGLDYDNVSVV 184
>gnl|CDD|163093 TIGR02974, phageshock_pspF, psp operon transcriptional activator
PspF. Members of this protein family are PspF, the
sigma-54-dependent transcriptional activator of the
phage shock protein (psp) operon, in Escherichia coli
and numerous other species. The psp operon is induced by
a number of stress conditions, including heat shock,
ethanol, and filamentous phage infection. Changed
com_name to adhere to TIGR role notes conventions.
09/15/06 - DMH.
Length = 329
Score = 30.0 bits (68), Expect = 1.7
Identities = 22/116 (18%), Positives = 38/116 (32%), Gaps = 24/116 (20%)
Query: 263 VAELNMDTQQIREIVYDPDSKVERSIRLSKDAQRSETSQPESAVTVEQNMPHVSDRKVPL 322
V ++ I EI+ DP + S + + + ++P S
Sbjct: 230 VYRHGLEEAPIDEIIIDPFA--------SPWRPKQAAPAVDEVNSTPTDLPSPSSIAAAF 281
Query: 323 PRSLENTDKKEEQSNYEINTKSIATTHDNYKLERLSIAVVVNKGRLTEVLGRSADQ 378
P L K+ Q +YEI A + N+ + E+LG + Q
Sbjct: 282 PLDL-----KQAQQDYEIELLQQALAEAQF-----------NQRKAAELLGLTYHQ 321
>gnl|CDD|180195 PRK05679, PRK05679, pyridoxamine 5'-phosphate oxidase; Provisional.
Length = 195
Score = 29.8 bits (68), Expect = 1.8
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 511 HSRNLQSRINSYVSKQSDLRLLHMIEINEERFAKILRKWARSEI 554
SR S+I ++ SKQS R + E +FA++ K+A+ E+
Sbjct: 108 ASRPRGSQIGAWASKQS--RPISSRAALEAKFAEVKAKFAQGEV 149
>gnl|CDD|163083 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This
protein, TorS, is part of a regulatory system for the
torCAD operon that encodes the pterin molybdenum
cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
reductase (TorA), a cognate chaperone (TorD), and a
penta-haem cytochrome (TorC). TorS works together with
the inducer-binding protein TorT and the response
regulator TorR. TorS contains histidine kinase ATPase
(pfam02518), HAMP (pfam00672), phosphoacceptor
(pfam00512), and phosphotransfer (pfam01627) domains and
a response regulator receiver domain (pfam00072).
Length = 968
Score = 29.4 bits (66), Expect = 2.8
Identities = 31/144 (21%), Positives = 57/144 (39%), Gaps = 17/144 (11%)
Query: 174 SVMIRAINPSVYKSAEAIRHLVAAAVPNLDMG------DVTVLDSTGKLLTA-NEMERNI 226
SV+I + S+ E R + +A+P + ++ S L +E +R
Sbjct: 20 SVVIGVLGLSLVAKTE--RTVTQSALPAMIEARQLSELSNQIIFSVQLLSNVDDERQRQA 77
Query: 227 LGKSLSIVQAIQHEIEMNINKALAAFLGVDNFRSAVVAELNMDTQQIREIVYDPDSKVER 286
+GK L++ Q E ++ KAL G F ++A L + + I + + V
Sbjct: 78 IGKKLTL----QSETLLHSLKAL----GELPFNEDLLARLEVLVKDIIDTLAQLGLSVGE 129
Query: 287 SIRLSKDAQRSETSQPESAVTVEQ 310
I L Q+ E+A + +
Sbjct: 130 RITLQAQLQQLSRELSEAAQEISE 153
>gnl|CDD|185224 PRK15324, PRK15324, type III secretion system lipoprotein PrgK;
Provisional.
Length = 252
Score = 29.2 bits (65), Expect = 2.9
Identities = 33/145 (22%), Positives = 61/145 (42%), Gaps = 11/145 (7%)
Query: 55 LEVSDVNRISVALSEANIDFRISDNGS---SISVPSSMVGKARIHLAAQGLPSSSSNSGY 111
L+ N + L NI+ D+G SI+V A + LP
Sbjct: 27 LDQEQANEVIAVLQMHNIEANKIDSGKLGYSITVAEPDFTAAVYWIKTYQLPPRPRVEIA 86
Query: 112 ELFDKVNSFGLTSFMQEITRVRALEGEIARTIQSISGIVAARVHIVMP-DMGSFRKIGAR 170
++F +S + ++ A+E + +++Q++ G+++ARVHI D G R
Sbjct: 87 QMF-PADSLVSSPRAEKARLYSAIEQRLEQSLQTMEGVLSARVHISYDIDAGE----NGR 141
Query: 171 PTASVMIRAINPSVYKSAEAIRHLV 195
P V + A+ +VY+ + H +
Sbjct: 142 PPKPVHLSAL--AVYERGSPLAHQI 164
>gnl|CDD|178530 PLN02942, PLN02942, dihydropyrimidinase.
Length = 486
Score = 28.3 bits (63), Expect = 5.2
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 194 LVAAAVPNLDMGD-VTVLDSTGKLL 217
++ A PNL + D V V+D+TGK +
Sbjct: 31 IIVAVAPNLKVPDDVRVIDATGKFV 55
>gnl|CDD|180858 PRK07139, PRK07139, amidase; Provisional.
Length = 439
Score = 28.1 bits (63), Expect = 6.0
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 64 SVALSEANIDFRI-SDNGSSISVPSSMVGKARIHLAAQGLPSSSSNSGYELF 114
S A NI F I SD G S+ +P+S +GK PS + S Y LF
Sbjct: 124 SAATFNKNISFAIGSDTGDSVRLPASFIGKVGFK------PSYGAISRYGLF 169
>gnl|CDD|129649 TIGR00558, pdxH, pyridoxamine-phosphate oxidase. This model is
similar to Pyridox_oxidase from PFAM but is designed to
find only true pyridoxamine-phosphate oxidase and to
ignore the related protein PhzG involved in phenazine
biosynthesis. This protein from E. coli was
characterized as a homodimer with two FMN per dimer.
Length = 217
Score = 27.8 bits (62), Expect = 7.3
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 501 LDSSNQDIFSHSRNLQSRINSYVSKQSDLRLLHMIEINEERFAKILRKWARSEI 554
L D + SR SRI ++ S+QS ++ E E + K K+ +EI
Sbjct: 120 LPREESDAYFKSRPRGSRIGAWASRQS--DVISNREELESKALKNTEKFEDAEI 171
>gnl|CDD|178381 PLN02784, PLN02784, alpha-amylase.
Length = 894
Score = 28.1 bits (62), Expect = 7.3
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 473 EVGGKSILSPPPISSAVTTGLMPNDNIALDS 503
+G + PPP S G MP D L+S
Sbjct: 532 SLGFTVVWLPPPTESVSPEGYMPKDLYNLNS 562
>gnl|CDD|149628 pfam08639, SLD3, DNA replication regulator SLD3. The SLD3 DNA
replication regulator is required for loading and
maintenance of Cdc45 on chromatin during DNA
replication.
Length = 468
Score = 27.9 bits (62), Expect = 8.2
Identities = 13/70 (18%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 282 SKVERSIRLSKDAQRSETSQPESAVTVEQN---MPHVSDRKVPLPRSLENTDKKEEQSNY 338
S+ ++ +K Q+ + +SA E+ ++++K + L+ ++ N
Sbjct: 354 SRTSSDLQKNKRLQKRQVDLSDSARQHEEKLKKKQMLNEQK----KELKRAISALKKPNR 409
Query: 339 EINTKSIATT 348
E++ K I T
Sbjct: 410 ELSAKDIVET 419
>gnl|CDD|180066 PRK05419, PRK05419, putative sulfite oxidase subunit YedZ;
Reviewed.
Length = 205
Score = 27.5 bits (62), Expect = 9.3
Identities = 17/36 (47%), Positives = 19/36 (52%), Gaps = 8/36 (22%)
Query: 435 HFATVINALVFLVGTLLVT----FLGLHAL---RRL 463
HF T + ALVFL+ TL VT G L RRL
Sbjct: 45 HF-TGLWALVFLLATLAVTPLRRLTGQPLLIRTRRL 79
>gnl|CDD|148613 pfam07105, DUF1367, Protein of unknown function (DUF1367). This
family consists of several highly conserved,
hypothetical bacterial and phage proteins of around 200
resides in length. The function of this family is
unknown.
Length = 196
Score = 27.4 bits (61), Expect = 9.9
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 401 RRGDTITITSMDFLE-NQLFNSGTVQVSFMDILSRHFAT 438
+ +I+ SMD E +L+ + + V + ILSR+F T
Sbjct: 144 KEPRSISFASMDETEFQELYKA-VLNVLWNWILSRYFNT 181
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.317 0.131 0.353
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,830,400
Number of extensions: 574770
Number of successful extensions: 1325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1306
Number of HSP's successfully gapped: 33
Length of query: 563
Length of database: 5,994,473
Length adjustment: 98
Effective length of query: 465
Effective length of database: 3,876,889
Effective search space: 1802753385
Effective search space used: 1802753385
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.9 bits)