RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780592|ref|YP_003065005.1| TPR repeat-containing protein
[Candidatus Liberibacter asiaticus str. psy62]
(271 letters)
>gnl|CDD|163072 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 58.2 bits (141), Expect = 2e-09
Identities = 38/181 (20%), Positives = 67/181 (37%), Gaps = 4/181 (2%)
Query: 88 QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSV 147
QA + Q+ P + G +DE + ++ A D D +S G
Sbjct: 313 QAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEA 372
Query: 148 LAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSR 207
+G +A +A EL P ++ + + +S L GD A L A+Q+ R
Sbjct: 373 YLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR 432
Query: 208 IRQNLALVVGLQGRMKEAYSIASQELSPEEATRNI-KYIKSILSQRDPWKKIAKARSNHN 266
L L G+ +A + A + + ++ + +I + +AKAR
Sbjct: 433 ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGK---GDLAKAREAFE 489
Query: 267 K 267
K
Sbjct: 490 K 490
Score = 42.0 bits (99), Expect = 1e-04
Identities = 36/152 (23%), Positives = 60/152 (39%), Gaps = 7/152 (4%)
Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133
L G TA+A+ + +P D + A + D+ + +
Sbjct: 743 HRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-- 800
Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
PD ++ + L K AL E+AL+L+PN +I+ + + G+ A
Sbjct: 801 --PDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALP 858
Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEA 225
LR A + + IR +LAL + GR EA
Sbjct: 859 LLRKAVNIAPEAAAIRYHLALALLATGRKAEA 890
Score = 38.9 bits (91), Expect = 0.002
Identities = 40/157 (25%), Positives = 64/157 (40%), Gaps = 6/157 (3%)
Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133
D+L +G ALA R+ L P + VL A L AG +E DA+ + P
Sbjct: 200 GDLLLSLGNIELALAAYRKAIALRPNNPAVLLALATILIEAGEFEEAEKHADAL-LKKAP 258
Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
+ P K V Q + +A + AL+ +P + S +G+L+ A +
Sbjct: 259 NSP--LAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQ 316
Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEAYSIAS 230
L + + R+ LA + GR+ EA + S
Sbjct: 317 YLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLS 353
Score = 33.9 bits (78), Expect = 0.046
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 140 LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
LI A S L + K+ A+I+ + AL+ PN++ + YL +GD AE++LR A
Sbjct: 25 LIEAAKSYLQK-NKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKAL 83
Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAY 226
+ +++ LA LQG+ ++
Sbjct: 84 SLGYPKNQVLPLLARAYLLQGKFQQVL 110
Score = 33.1 bits (76), Expect = 0.082
Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 1/149 (0%)
Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIP 136
AD + A+A+ +++ L P++ E + L A + Q+
Sbjct: 642 ADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK 701
Query: 137 DWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLR 196
+G + + + A+ Y +AL+ +P+ S + + L G+ A + L
Sbjct: 702 AALGFELEGDLYLRQKDYPAAIQAYRKALKRAPS-SQNAIKLHRALLASGNTAEAVKTLE 760
Query: 197 FASQMIGADSRIRQNLALVVGLQGRMKEA 225
+ D+ +R LA + Q +A
Sbjct: 761 AWLKTHPNDAVLRTALAELYLAQKDYDKA 789
Score = 33.1 bits (76), Expect = 0.083
Identities = 20/95 (21%), Positives = 36/95 (37%)
Query: 101 PEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIE 160
P + DE I+ D + + KG +L +G AL
Sbjct: 156 PRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAA 215
Query: 161 YERALELSPNESSIVSNIAMSYLLMGDLKTAEEKL 195
Y +A+ L PN +++ +A + G+ + AE+
Sbjct: 216 YRKAIALRPNNPAVLLALATILIEAGEFEEAEKHA 250
Score = 32.0 bits (73), Expect = 0.18
Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 7/98 (7%)
Query: 109 AYGKSLANAGYLDEG----LDAINRAQR---PDIPDWQLISAKGSVLAQMGKHSEALIEY 161
+ + AN +D DAI R ++ D + + I A + + G EA+
Sbjct: 497 DFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWL 556
Query: 162 ERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
E+A EL+P E +A YL G LK A L A+
Sbjct: 557 EKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAA 594
Score = 32.0 bits (73), Expect = 0.19
Identities = 39/184 (21%), Positives = 75/184 (40%), Gaps = 6/184 (3%)
Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQRPDIPDWQLI 141
G ++A+A + A L PE S +G D+ L A + ++PD L
Sbjct: 411 GDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNA--SLH 468
Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201
+ G++ G ++A +E+AL + P+ +N+A + G+ A ++ +
Sbjct: 469 NLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI 528
Query: 202 IGADSRIRQNLALVVGLQGRMKEAYSIASQ--ELSPEEATRNIKYIKSILSQRDPWKKIA 259
+ R LA + G +EA + + EL+P+E + + L + K +A
Sbjct: 529 DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALA 588
Query: 260 KARS 263
Sbjct: 589 ILNE 592
>gnl|CDD|182209 PRK10049, pgaA, outer membrane protein PgaA; Provisional.
Length = 765
Score = 43.2 bits (102), Expect = 8e-05
Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 5/96 (5%)
Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLD-AINR-AQRPD 134
A R + + +L + ++ L P++ + +LA+AG DE L A + PD
Sbjct: 56 AVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPD 115
Query: 135 IPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170
+ A V + G+H + L +AL +P
Sbjct: 116 KANLL---ALAYVYKRAGRHWDELRAMTQALPRAPQ 148
>gnl|CDD|162919 TIGR02552, LcrH_SycD, type III secretion low calcium response
chaperone LcrH/SycD. ScyD/LcrH contains three central
tetratricopeptide-like repeats that are predicted to
fold into an all-alpha-helical array.
Length = 135
Score = 41.5 bits (98), Expect = 2e-04
Identities = 24/126 (19%), Positives = 48/126 (38%), Gaps = 12/126 (9%)
Query: 88 QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDE------GLDAINRAQRPDIPDWQLI 141
A ++ + L E E + A +L G DE L A + + +
Sbjct: 1 SGGATLKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY------NSRYW 54
Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201
+ + ++ EA+ Y A L P++ + A L +G+ ++A + L A ++
Sbjct: 55 LGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEI 114
Query: 202 IGADSR 207
G +
Sbjct: 115 CGENPE 120
>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
Length = 1157
Score = 37.4 bits (87), Expect = 0.004
Identities = 27/113 (23%), Positives = 49/113 (43%), Gaps = 20/113 (17%)
Query: 111 GKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170
G + ++G + + + +A R + D + + A G +Q G + A+ ++E+AL L P+
Sbjct: 276 GLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPH 335
Query: 171 -------ESSIVSNIAMSYLLM----------GDLKTAEEKLRFASQMIGADS 206
ES + N Y L+ +L AE + A Q+ DS
Sbjct: 336 SSNRDKWESLLKVN---RYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDS 385
Score = 37.4 bits (87), Expect = 0.005
Identities = 38/181 (20%), Positives = 62/181 (34%), Gaps = 42/181 (23%)
Query: 76 YADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQR--- 132
A LR+ G+ +QA A+MR++A P D E + AYG L+ + L +N R
Sbjct: 501 LAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQW 560
Query: 133 -PDIPDW------QLISAKGSVL------------------------------AQMGKHS 155
+I + + + L Q G ++
Sbjct: 561 NSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA 620
Query: 156 EALIEYERALELSP-NESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRIRQNLAL 214
A Y+R L P N + + I + GDL A +L ++ +AL
Sbjct: 621 AARAAYQRVLTREPGNADARLGLIE-VDIAQGDLAAARAQLAKLPATANDSLNTQRRVAL 679
Query: 215 V 215
Sbjct: 680 A 680
Score = 37.0 bits (86), Expect = 0.006
Identities = 24/132 (18%), Positives = 51/132 (38%), Gaps = 14/132 (10%)
Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRA-----QRPDIPDW 138
G+ +A+ ++Q P+D E L A G++ + G + +A + W
Sbjct: 283 GQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKW 342
Query: 139 Q---------LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLK 189
+ L+ +G + ++A Y++A ++ +S V + + D
Sbjct: 343 ESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYA 402
Query: 190 TAEEKLRFASQM 201
AE + A +M
Sbjct: 403 AAERYYQQALRM 414
Score = 31.2 bits (71), Expect = 0.26
Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 136 PDWQLISAKGSVLAQM--GKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
P ++ A+ LA + G+ +A+ E ++A+ +P +S + + +Y GD A
Sbjct: 268 PAFR---ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVA 324
Query: 194 KLRFASQM 201
+ A +
Sbjct: 325 QFEKALAL 332
Score = 26.6 bits (59), Expect = 6.4
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 77 ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR---AQRP 133
A+ L G+ AQA + RQ L P + + L AG + DA+ R Q+P
Sbjct: 468 AEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQA-DALMRRLAQQKP 526
Query: 134 DIPD 137
+ P+
Sbjct: 527 NDPE 530
>gnl|CDD|179448 PRK02603, PRK02603, photosystem I assembly protein Ycf3;
Provisional.
Length = 172
Score = 33.1 bits (76), Expect = 0.079
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 145 GSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEK 194
G + A G+H +AL Y +ALEL+P + S ++NIA+ Y G+ AEE
Sbjct: 79 GIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRGE--KAEEA 126
Score = 30.8 bits (70), Expect = 0.40
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 15/95 (15%)
Query: 152 GKHSEALIEYERALEL--SPNESS-IVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRI 208
G+++EAL YE AL+L PN+ S I+ N+ + Y G+ A L + Q + + +
Sbjct: 49 GEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKA---LEYYHQALELNPKQ 105
Query: 209 RQ---NLALVVGLQGRMKEAYSIASQELSPEEATR 240
N+A++ +G A + +EA
Sbjct: 106 PSALNNIAVIYHKRGE------KAEEAGDQDEAEA 134
>gnl|CDD|185096 PRK15174, PRK15174, Vi polysaccharide export protein VexE;
Provisional.
Length = 656
Score = 32.0 bits (72), Expect = 0.15
Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 75 VYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQR 132
+YAD L R G+ +A+ +++Q +P+ V A Y ++L G D + ++
Sbjct: 289 LYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK 348
Query: 133 PDIPDWQLISAKGSVLAQMGKHSEA 157
W A + L Q GK SEA
Sbjct: 349 GVTSKWNR-YAAAA-LLQAGKTSEA 371
>gnl|CDD|128343 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4
or more copies in proteins. Contain a minimum of 34
amino acids each and self-associate via a "knobs and
holes" mechanism.
Length = 34
Score = 32.0 bits (74), Expect = 0.15
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 144 KGSVLAQMGKHSEALIEYERALELSPN 170
G+ ++G + EAL YE+ALEL PN
Sbjct: 7 LGNAYLKLGDYDEALEYYEKALELDPN 33
>gnl|CDD|149015 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 31.7 bits (73), Expect = 0.22
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 143 AKGSVLAQMGKHSEALIEYERALELSPN 170
G ++G + EAL YE+ALEL PN
Sbjct: 6 NLGLAYYKLGDYEEALEAYEKALELDPN 33
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PubMed:8973346) and PilW in ref (PubMed:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 31.2 bits (71), Expect = 0.29
Identities = 24/112 (21%), Positives = 45/112 (40%), Gaps = 2/112 (1%)
Query: 116 NAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIV 175
G L+ + +++A D D+ A Q+G+ +A + RAL L+PN ++
Sbjct: 43 EQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVL 102
Query: 176 SNIAMSYLLMGDLKTAEEKLRFA--SQMIGADSRIRQNLALVVGLQGRMKEA 225
+N G + A ++ A + +R +N L G +A
Sbjct: 103 NNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA 154
Score = 30.4 bits (69), Expect = 0.54
Identities = 38/194 (19%), Positives = 69/194 (35%), Gaps = 23/194 (11%)
Query: 21 LIPLLLFSSCHLNPRISIPDPESLENMNHEQLLEVTSTIGLQY----------------- 63
L+ LL + C P + P S + + ++ + L Y
Sbjct: 3 LVFLLALTGCVTTPDV----PRSSRTTDRNKAAKIRVQLALGYLEQGDLEVAKENLDKAL 58
Query: 64 QSHTKNKMIGIVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG 123
+ + + + A +++G +A R+ L P + +VL YG L G ++
Sbjct: 59 EHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQA 118
Query: 124 LDAINRAQR-PDIPD-WQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMS 181
+ +A P P + + G + G +A RAL++ P + +A
Sbjct: 119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL 178
Query: 182 YLLMGDLKTAEEKL 195
Y L G K A L
Sbjct: 179 YYLRGQYKDARAYL 192
>gnl|CDD|152282 pfam11846, DUF3366, Domain of unknown function (DUF3366). This
domain is functionally uncharacterized. This domain is
found in bacteria. This presumed domain is about 200
amino acids in length.
Length = 193
Score = 30.8 bits (70), Expect = 0.40
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 9/88 (10%)
Query: 31 HLNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQAL 90
L I+ +PE L HEQ L++ + + + A L +G+ A+A
Sbjct: 114 ALLLGITPQNPELLLPY-HEQALKL-------LRYKPRPAVYRR-LALALALLGKPAEAR 164
Query: 91 AVMRQVAILYPEDQEVLAAYGKSLANAG 118
M Q LYP A Y + A +
Sbjct: 165 DWMAQARYLYPLADFCAALYARPAAASA 192
>gnl|CDD|117839 pfam09295, ChAPs, ChAPs (Chs5p-Arf1p-binding proteins). ChAPs
(Chs5p-Arf1p-binding proteins) are required for the
export of specialized cargo from the Golgi. They
physically interact with Chs3, Chs5 and the small GTPase
Arf1, and they form also interactions with each other.
Length = 395
Score = 30.4 bits (69), Expect = 0.47
Identities = 35/168 (20%), Positives = 72/168 (42%), Gaps = 14/168 (8%)
Query: 32 LNPRISIPDPESLENM---NHEQLLEVTSTIG----LQYQSHTKNKMI-GIVYADVLRRV 83
LNP + + E + NM E L +G +Q + N ++ G++ +R
Sbjct: 126 LNP-FTNGELEDVANMFLKAFELLFFRGPQLGSPSEIQVPTLVNNYLVEGLL--KYVRLT 182
Query: 84 GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISA 143
R +AL ++ ++ PE +LA + L + + ++ A + + D++L+
Sbjct: 183 KRYDRALNLLEKLREEEPEVVSLLA---RVLLLMDEEIDAVKLMHDALQENPMDYELLCL 239
Query: 144 KGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTA 191
+ L K AL +RA+ +P+E + + Y+ + D + A
Sbjct: 240 QAEFLLSKKKDELALECAKRAVNSAPSEFKTWALLVKVYIKLEDWENA 287
>gnl|CDD|162156 TIGR01004, PulS_OutS, lipoprotein, PulS/OutS family. This family
comprises lipoproteins from four gamma proteobacterial
species: PulS protein of Klebsiella pneumoniae, the
OutS protein of Erwinia chrysanthemi and Pectobacterium
chrysanthemi, and the functionally uncharacterized E.
coli protein EtpO. PulS and OutS have been shown to
interact with and facilitate insertion of secretins
into the outer membrane, suggesting a chaperone-like,
or piloting function for members of this family.
Length = 128
Score = 30.3 bits (68), Expect = 0.59
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 15 IKCIVFLIPLLLFSSCHLNPRI----SIPDPESLENM 47
+KCI F + + S C NP I S+P E LE +
Sbjct: 6 LKCIAFGLCCVSLSGCQQNPAIHKAASVPANEQLEQL 42
>gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 204
Score = 29.4 bits (67), Expect = 0.91
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 187 DLKTAEEKLRFASQMIGA--DSRIRQNLALVVGLQGRM 222
TA E LRF ++ G D + + LA VGL G
Sbjct: 87 TELTALENLRFYQRLHGPGDDEALWEALAQ-VGLAGFE 123
>gnl|CDD|181272 PRK08180, PRK08180, feruloyl-CoA synthase; Reviewed.
Length = 614
Score = 29.1 bits (66), Expect = 1.3
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 72 IGIVYADVLRRVGRTAQALAVM-----RQVAIL 99
+ YA+ L RV AQAL R + IL
Sbjct: 68 RRLTYAEALERVRAIAQALLDRGLSAERPLMIL 100
>gnl|CDD|185101 PRK15179, PRK15179, Vi polysaccharide biosynthesis protein TviE;
Provisional.
Length = 694
Score = 28.8 bits (64), Expect = 1.5
Identities = 26/140 (18%), Positives = 48/140 (34%)
Query: 74 IVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRP 133
++ A L R+ + LAV R + +P+ E + + ++ G I
Sbjct: 90 VLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG 149
Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
+ I + ++G+ +A +ER P + A S G L A +
Sbjct: 150 GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARD 209
Query: 194 KLRFASQMIGADSRIRQNLA 213
L+ IG +R
Sbjct: 210 VLQAGLDAIGDGARKLTRRL 229
>gnl|CDD|184326 PRK13788, PRK13788, adenylosuccinate synthetase; Provisional.
Length = 404
Score = 28.6 bits (64), Expect = 1.9
Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 14/125 (11%)
Query: 32 LNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQALA 91
LNP++ I + L +H+ + + +G T + IG Y+D RRVG L
Sbjct: 91 LNPKLLISERAHLVLPHHKYVDGRKNFVG------TTGRGIGPAYSDRARRVGIRFGDLL 144
Query: 92 VMRQVAILYPEDQEVLAAYGKSLANAGY--LDEGLDAINRAQRPDIPDWQLISAKGSVLA 149
A+L + +L A S AG+ +++ L + + +P I+ GS+L
Sbjct: 145 ---DEAVLRERVERLLEAKPNSTREAGWDTVEKALADLAPMREILLP---FIADTGSLLR 198
Query: 150 QMGKH 154
+ +
Sbjct: 199 EAIRE 203
>gnl|CDD|182072 PRK09782, PRK09782, bacteriophage N4 receptor, outer membrane
subunit; Provisional.
Length = 987
Score = 28.3 bits (63), Expect = 2.3
Identities = 19/73 (26%), Positives = 34/73 (46%)
Query: 143 AKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMI 202
A+ ++ Q A+ + ALEL PN S+ + + + GD+ + E L A + +
Sbjct: 614 ARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL 673
Query: 203 GADSRIRQNLALV 215
D + + LA V
Sbjct: 674 PDDPALIRQLAYV 686
>gnl|CDD|181247 PRK08137, PRK08137, amidase; Provisional.
Length = 497
Score = 27.8 bits (62), Expect = 3.0
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 108 AAYGKSLANAGYL--DEGLDAINRAQRPD 134
AY +LA+A L EG+DA + R D
Sbjct: 381 PAYLDALADAKRLAGPEGIDAALKEHRLD 409
>gnl|CDD|183138 PRK11443, PRK11443, lipoprotein; Provisional.
Length = 124
Score = 27.8 bits (62), Expect = 3.5
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 16 KCIVFLIPLLLFSSCHLNPRISIPDPES 43
K I L+ LLL S C ++P P S
Sbjct: 3 KFIAPLLALLL-SGCQIDPYTHAPTLTS 29
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 27.5 bits (61), Expect = 3.6
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 182 YLLMGDLKTAEEKLRFASQMIG 203
Y+L+GD +TA+ R S M+G
Sbjct: 742 YVLVGDQQTAQPSFRLTSAMVG 763
>gnl|CDD|150766 pfam10129, OpgC_C, OpgC protein. This domain, found in various
hypothetical and OpgC prokaryotic proteins. It is likely
to act as an acyltransferase enzyme.
Length = 358
Score = 27.1 bits (61), Expect = 4.4
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 71 MIGIVYADVLRRVGRTAQALAVMRQVAILY 100
G+ Y RR G A A ++R+ LY
Sbjct: 50 AAGMAYGRAFRRRGWLAAAARILRRAWQLY 79
>gnl|CDD|182152 PRK09932, PRK09932, glycerate kinase II; Provisional.
Length = 381
Score = 27.2 bits (60), Expect = 4.7
Identities = 36/162 (22%), Positives = 59/162 (36%), Gaps = 30/162 (18%)
Query: 87 AQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLD-EGLDAINRAQRPDIP---DWQLIS 142
AQAL V D +VL A G +LA ++ + D ++ D L+
Sbjct: 146 AQALGVR-----FLDADGQVLGANGGNLARVASIEMDECDPRLANCHIEVACDVDNPLVG 200
Query: 143 AKGSVLA---QMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
A+G+ Q G E + E E+ L+ N + + L+ E
Sbjct: 201 ARGAAAVFGPQKGATPEMVEELEQGLQ---NYARV-------------LQQQTE--INVC 242
Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAYSIASQELSPEEATRN 241
QM G + +A V L +K I ++ E+A +
Sbjct: 243 QMAGGGAAGGMGIAAAVFLNADIKPGIEIVLNAVNLEQAVQG 284
>gnl|CDD|162353 TIGR01426, MGT, glycosyltransferase, MGT family. This model
describes the MGT (macroside glycosyltransferase)
subfamily of the UDP-glucuronosyltransferase family.
Members include a number of glucosyl transferases for
macrolide antibiotic inactivation, but also include
transferases of glucose-related sugars for macrolide
antibiotic production.
Length = 392
Score = 27.0 bits (60), Expect = 5.1
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 192 EEKLRFASQMIGADSRIRQNLALVVGLQGRMKEA--YSIASQEL 233
EKLR A + +D R + L ++ ++EA A+ E+
Sbjct: 346 AEKLREAVLAVLSDPRYAERLR---KMRAEIREAGGARRAADEI 386
>gnl|CDD|179714 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 27.2 bits (61), Expect = 5.2
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 8/43 (18%)
Query: 72 IGIVYADVLRRVGRTAQALAVM-----RQVAILY---PEDQEV 106
+ I YA +R G TAQAL+V+ R+ L P D E+
Sbjct: 135 LAIYYAGPIRSAGGTAQALSVLVGDYVRRKLGLDRYKPTDDEI 177
>gnl|CDD|149016 pfam07721, TPR_4, Tetratricopeptide repeat. This Pfam entry
includes tetratricopeptide-like repeats not detected by
the pfam00515, pfam07719 and pfam07720 models.
Length = 26
Score = 26.5 bits (60), Expect = 6.7
Identities = 5/22 (22%), Positives = 11/22 (50%)
Query: 74 IVYADVLRRVGRTAQALAVMRQ 95
+ A L +G +A A++ +
Sbjct: 5 LALARALLALGDLDEARALLER 26
>gnl|CDD|183811 PRK12882, ubiA, prenyltransferase; Reviewed.
Length = 276
Score = 26.5 bits (59), Expect = 7.6
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 119 YLDEGLDAINRAQRPDIPDWQLISAKGSV 147
Y D +D INR RP IP +S +G++
Sbjct: 60 YFDREIDRINRPDRP-IPSGA-VSPRGAL 86
>gnl|CDD|150637 pfam09986, DUF2225, Uncharacterized protein conserved in bacteria
(DUF2225). This domain, found in various hypothetical
bacterial proteins, has no known function.
Length = 214
Score = 26.5 bits (59), Expect = 8.5
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 156 EALIEYERALELSPNESSIVSNIAMSYL---LMGDLKTAEEKLRFASQMIGA 204
+AL Y+ A E + + YL L L EE LR+ S++IG+
Sbjct: 143 KALELYKEAYEKEDFPIEGIDEATLMYLIGELSRRLGNKEEALRWFSKVIGS 194
>gnl|CDD|184801 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
Length = 1627
Score = 26.0 bits (57), Expect = 10.0
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 70 KMIGIVYADVLRRVGRTAQALAVM 93
+ + I YA +R G TAQAL+V+
Sbjct: 137 EYLAIYYAGPIRSAGGTAQALSVL 160
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
0.319 0.133 0.371
Gapped
Lambda K H
0.267 0.0642 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,362,382
Number of extensions: 280388
Number of successful extensions: 698
Number of sequences better than 10.0: 1
Number of HSP's gapped: 686
Number of HSP's successfully gapped: 62
Length of query: 271
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,006,537
Effective search space: 717170123
Effective search space used: 717170123
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: 56 (25.5 bits)