RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780241|ref|YP_003064654.1| preprotein translocase subunit
SecY [Candidatus Liberibacter asiaticus str. psy62]
(444 letters)
>gnl|CDD|30550 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular
trafficking and secretion].
Length = 436
Score = 396 bits (1020), Expect = e-111
Identities = 207/430 (48%), Positives = 285/430 (66%), Gaps = 13/430 (3%)
Query: 13 NFASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFS 72
+ + +L+ RI+FT+ ALIVYR G++IP+P I+ + S F S+ I LFNMFS
Sbjct: 9 VLSPKFKVPELRKRILFTLGALIVYRIGSFIPVPGINPAALSDLFNSQRFLI--LFNMFS 66
Query: 73 GGAVERMAVFSLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLG 132
GGA+ R ++F+LGIMPYI+ASII+QL+ P L+ L KEGE+GR+ I QYTRY T++L
Sbjct: 67 GGALSRGSIFALGIMPYITASIIMQLLTVGSPILKKLDKEGEEGRRKIQQYTRYLTLVLA 126
Query: 133 ILQAYGIAVGLKN--GQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSL 190
++QA G+ +G N V + FF I+ L GTMFL+WLGEQIT RGIGNG+SL
Sbjct: 127 VIQALGVVLGGNNGGSPSDVGNGGIFFYLLIILQLTAGTMFLMWLGEQITKRGIGNGISL 186
Query: 191 IIFSGIVAGLPSSLVSVLELGRVGS--ISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQ 248
IIF+GIVA LPS++ ++ G+ +S +LL+ T+A+I LV++ E+A+RR+ IQ
Sbjct: 187 IIFAGIVASLPSAIFGIIGALPTGALFLSILFLLLLVLLTLAIIFLVVYVEQARRRIPIQ 246
Query: 249 YPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSP---TWIV 305
Y KRQ ++ SYLPLKLN AGV+P IFASSLLL P+TI F+ + +
Sbjct: 247 YAKRQ----SYRGQSSYLPLKLNYAGVIPVIFASSLLLFPSTIAQFLGNGGLAYYLSPLT 302
Query: 306 GLVDSLGHGRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTAL 365
+ D+L G Y+ LY V I+FF++FYT I FNP+E A+NLKK GGFIPGIRPG T
Sbjct: 303 SISDALSPGSPVYIALYVVLIIFFSYFYTEIQFNPEEIAENLKKSGGFIPGIRPGKDTEK 362
Query: 366 HIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTIVQIQGYL 425
+++ V+ R+T +GA +L + I PE L GVP GTSLLI+V V LDT QI+ L
Sbjct: 363 YLNRVIPRLTFIGALFLGLIAILPELLGTAGGVPFYFGGTSLLIVVGVALDTYEQIEAEL 422
Query: 426 IAQQYEGVFK 435
+ ++Y G+ +
Sbjct: 423 LMEKYPGLRR 432
>gnl|CDD|144075 pfam00344, SecY, eubacterial secY protein.
Length = 340
Score = 343 bits (883), Expect = 5e-95
Identities = 167/344 (48%), Positives = 226/344 (65%), Gaps = 12/344 (3%)
Query: 81 VFSLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIA 140
+F+LGI PYI+ASII+QL+ P LE L KEGE+GRK I QYTRY T++L ++QA GI
Sbjct: 2 IFALGIGPYITASIIMQLLTVVGPKLEKLDKEGEEGRKKIQQYTRYLTLVLALIQAIGIV 61
Query: 141 VGLKN----GQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGI 196
+GL + GIV + + ++ L GTMFL+WLGE IT GIGNG+SLIIF+GI
Sbjct: 62 LGLGSYGAFSNGIVLGVGFLNLLLIVLQLTAGTMFLMWLGELITKYGIGNGISLIIFAGI 121
Query: 197 VAGLPSSLVSVLELGRVGS--ISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQV 254
V+ +P +++++ L G +S +LL+ +T+AVI LV++ + A+RR+ IQY KR V
Sbjct: 122 VSSIPWAIINLFSLLSSGGGLLSILYLLLLLIATLAVILLVVYLQEARRRIPIQYAKRVV 181
Query: 255 GNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGHG 314
G + SYLP+KLN AGV+P IFASSLL P TI F+ S + GL L G
Sbjct: 182 GGG--RGQSSYLPIKLNYAGVIPIIFASSLLANPQTIAQFLGSSFPLWPVSGLAYYLPIG 239
Query: 315 RSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRV 374
Y++ Y V I+FF++FYTAI FNPK+ A+NLKK GGFIPGIRPG T +++ V+ R+
Sbjct: 240 SPVYILFYIVLIIFFSYFYTAIGFNPKDIAENLKKSGGFIPGIRPGKSTEKYLNRVIPRL 299
Query: 375 TVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTI 418
T +GA +L + + P+ L A+ G GTSLLI V V LDT
Sbjct: 300 TFIGAIFLGLLAVLPDLLGALGG----FGGTSLLIAVGVALDTY 339
>gnl|CDD|177074 CHL00161, secY, preprotein translocase subunit SecY; Validated.
Length = 417
Score = 299 bits (769), Expect = 7e-82
Identities = 164/420 (39%), Positives = 250/420 (59%), Gaps = 15/420 (3%)
Query: 21 KDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMA 80
+L +R++FT+ L++ R GT+IP+P ID + + + L N FSGG +
Sbjct: 8 DELLNRLLFTLGLLLLIRLGTFIPVPGIDHTQLYPSLSNNP--LLNLLNTFSGGGFFVIG 65
Query: 81 VFSLGIMPYISASIIVQLIAATVPSLENLKKE-GEQGRKVINQYTRYATVLLGILQAYGI 139
+F+LGI+PYI+ASII+QL+ + +PSLE L+KE GE GR+ INQYTRY T+ I+Q+ GI
Sbjct: 66 LFALGILPYINASIIIQLLTSIIPSLEKLQKEEGEAGRRKINQYTRYLTLGWAIIQSIGI 125
Query: 140 AVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVAG 199
+ LK + + + ++ L G+M ++WL E IT +G+GNG SL+IF IV+
Sbjct: 126 SFWLKP---YLFNWNLLLALEIVLALTSGSMIVLWLSELITEKGLGNGSSLLIFFNIVSN 182
Query: 200 LPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIAL--VIFFERAQRRLLIQYPKRQVGNR 257
LP L L S + ++ ++ + I L +IF + A R++ + K Q+G
Sbjct: 183 LPKLL---QSLLFSLSANITILSILLLLFLFFITLIGIIFLQEAIRKIPLISAK-QLGKS 238
Query: 258 MFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGHGRSF 317
SYLPL+LN AGV+P IFAS+LL+LP + I ++ ++ L L +
Sbjct: 239 SRLASNSYLPLRLNQAGVMPIIFASALLVLPGYL-TNILLNQFLLPLLSLFLQLASFKIL 297
Query: 318 YMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVV 377
Y+VLY V I+FF++FY+ IV NPK+ ++NL+K IPGIRPG T ++ L R+T++
Sbjct: 298 YLVLYFVLILFFSYFYSTIVLNPKDISENLQKMAVSIPGIRPGKATTKYLKKTLNRLTLL 357
Query: 378 GAGYLVCVCIFPEALIAVTGVPV--SLSGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVFK 435
GA +L + + P + +V + V L TSLLI+V V +DT QIQ YLI+ YE ++
Sbjct: 358 GALFLAFIALLPNLIESVLNLSVFKGLGTTSLLILVGVAIDTSRQIQTYLISNNYENMYD 417
>gnl|CDD|36587 KOG1373, KOG1373, KOG1373, Transport protein Sec61, alpha subunit
[Intracellular trafficking, secretion, and vesicular
transport, Posttranslational modification, protein
turnover, chaperones].
Length = 476
Score = 39.1 bits (91), Expect = 0.002
Identities = 37/175 (21%), Positives = 78/175 (44%), Gaps = 15/175 (8%)
Query: 23 LKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVF 82
+ ++++T I+L+++ + IPL I S + M A R +
Sbjct: 29 FREKLLWTAISLLIFLVCSQIPLYGI----------MSSDTADPFYWMRVILASNRGTLM 78
Query: 83 SLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVG 142
LGI P +++ +I+QL+A + + + ++ R++ N + +++ + QA +
Sbjct: 79 ELGISPIVTSGLIMQLLAGS--KIIEVNFNIKEDRELFNGAQKLFAIIITVGQA--VVYV 134
Query: 143 LKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITM-RGIGNGVSLIIFSGI 196
+ G SD I+ L + ++ L E + G+G+G+SL I + I
Sbjct: 135 MTGMYGSPSDLGVGICLLIILQLFFAGIIVILLDELLQKGYGLGSGISLFIATNI 189
>gnl|CDD|30450 COG0101, TruA, Pseudouridylate synthase [Translation, ribosomal
structure and biogenesis].
Length = 266
Score = 32.2 bits (73), Expect = 0.27
Identities = 13/43 (30%), Positives = 18/43 (41%)
Query: 1 MASAVEQFVSNLNFASFSRAKDLKSRIVFTIIALIVYRFGTYI 43
M A + + +F SF +A V TI + V R G I
Sbjct: 140 MREAAKLLLGTHDFTSFRKAGCQSKSPVRTIYRIDVSRDGDLI 182
>gnl|CDD|144263 pfam00606, Glycoprotein_B, Herpesvirus Glycoprotein B. This family
of proteins contains a transmembrane region.
Length = 711
Score = 29.1 bits (66), Expect = 2.3
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 11/65 (16%)
Query: 182 RGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPL-MLLIFSSTVAVIALVIFFER 240
+ +GN V VAG S+VS G V + P LLI +A + V R
Sbjct: 637 KAVGNVV------SGVAGAVGSIVS----GVVSFLKNPFGGLLIILLVLAGLVAVFLAYR 686
Query: 241 AQRRL 245
RRL
Sbjct: 687 RVRRL 691
>gnl|CDD|31311 COG1114, BrnQ, Branched-chain amino acid permeases [Amino acid
transport and metabolism].
Length = 431
Score = 27.8 bits (62), Expect = 5.7
Identities = 13/42 (30%), Positives = 23/42 (54%)
Query: 196 IVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIF 237
I+ L S LV+ L L ++ IS P++ I+ +A++ L
Sbjct: 318 IIFTLISFLVANLGLEQIIKISVPVLTAIYPIAIALVLLSFA 359
>gnl|CDD|146013 pfam03176, MMPL, MMPL family. Members of this family are putative
integral membrane proteins from bacteria. Several of the
members are mycobacterial proteins. Many of the proteins
contain two copies of this aligned region. The function
of these proteins is not known, although it has been
suggested that they may be involved in lipid transport.
Length = 332
Score = 27.6 bits (62), Expect = 6.5
Identities = 22/125 (17%), Positives = 44/125 (35%), Gaps = 20/125 (16%)
Query: 127 ATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGT---MFLV---------- 173
TV L + A G+ L + GI S + ++ + GT +FLV
Sbjct: 174 LTVGLSLGAAQGLVAILAHILGI-GLSTFALNLLVVLLIAVGTDYALFLVSRYREELRAG 232
Query: 174 ---WLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVA 230
+RG G ++ +G+ + +S L + + + + +A
Sbjct: 233 EDREEAVIRAVRGTG---KVVTAAGLTVAIAMLALSFARLPVFAQVGPTIAIGVLVDVLA 289
Query: 231 VIALV 235
+ L+
Sbjct: 290 ALTLL 294
>gnl|CDD|133025 cd04182, GT_2_like_f, GT_2_like_f is a subfamily of the
glycosyltransferase family 2 (GT-2) with unknown
function. GT-2 includes diverse families of
glycosyltransferases with a common GT-A type structural
fold, which has two tightly associated beta/alpha/beta
domains that tend to form a continuous central sheet of
at least eight beta-strands. These are enzymes that
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. Glycosyltransferases have been
classified into more than 90 distinct sequence based
families.
Length = 186
Score = 27.1 bits (61), Expect = 9.3
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 80 AVFSLGIMPYISASIIVQLIAA 101
+ L P ++A + LI A
Sbjct: 94 VLILLADQPLVTAETLRALIDA 115
>gnl|CDD|30020 cd02570, PseudoU_synth_EcTruA, PseudoU_synth_EcTruA: Pseudouridine
synthase, Escherichia coli TruA like. This group
consists of eukaryotic and bacterial pseudouridine
synthases similar to E. coli TruA, Pseudomonas
aeruginosa truA and human pseudouridine synthase-like 1
(PUSL1). Pseudouridine synthases catalyze the
isomerization of specific uridines in an RNA molecule to
pseudouridines (5-ribosyluracil, psi). No cofactors are
required. E. coli TruA makes psi38/39 and/or 40 in tRNA.
psi38 and psi39 in tRNAs are highly phylogenetically
conserved. P. aeruginosa truA is required for induction
of type III secretory genes and may act through
modifying tRNAs critical for the expression of type III
genes or their regulators..
Length = 239
Score = 27.0 bits (60), Expect = 9.9
Identities = 14/43 (32%), Positives = 18/43 (41%)
Query: 1 MASAVEQFVSNLNFASFSRAKDLKSRIVFTIIALIVYRFGTYI 43
M A + + +F+SF A V TI VYR G I
Sbjct: 135 MQEAAKLLLGTHDFSSFRAAGCQSKSTVRTIYRADVYREGDLI 177
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.326 0.142 0.403
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,294,196
Number of extensions: 306647
Number of successful extensions: 1370
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1337
Number of HSP's successfully gapped: 109
Length of query: 444
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 347
Effective length of database: 4,167,664
Effective search space: 1446179408
Effective search space used: 1446179408
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (26.5 bits)