RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780454|ref|YP_003064867.1| DNA polymerase III subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
(385 letters)
>gnl|CDD|180180 PRK05643, PRK05643, DNA polymerase III subunit beta; Validated.
Length = 367
Score = 371 bits (956), Expect = e-103
Identities = 154/386 (39%), Positives = 230/386 (59%), Gaps = 20/386 (5%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MK T+ R+ +L+ L +ER+NTIP+ +VL++A G L + A+ EI I IPA
Sbjct: 1 MKFTISRNALLKALQLVQGAVERRNTIPILSNVLIEAEGGKLSLTATDLEISIETTIPAE 60
Query: 61 VDVC-GSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFP 119
V+V GSITV A L DIVRKL DGA+I+ E E + I G S F L + P +FP
Sbjct: 61 VEVEEGSITVPAKKLLDIVRKLPDGAEITL--ELEENNRLTIKSGKSRFNLPTLPAEDFP 118
Query: 120 STKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGH 179
+ E E SF L LK L+E+T FAM+T+E RYYLNG+ I +L AVATDGH
Sbjct: 119 NLPEIEEEVSFTLPQKTLKRLIEKTQFAMSTQETRYYLNGVLLEIEGN--ELRAVATDGH 176
Query: 180 RLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239
RLAV ++++ S+I+PRK + E+ ++L + V++ +S+++I + +
Sbjct: 177 RLAVRKLELEEGSLGDFSVIIPRKTLLELQKLLDD-EEPVEIFISDNQILFEFGNTIFTS 235
Query: 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTV 299
+LIDG+FP+Y+ VIP DK+L V+ L QA++R SI+S+ + + VKLSLS +L ++
Sbjct: 236 KLIDGKFPDYRRVIPKEFDKKLTVDRKELLQALERASILSNEKSRGVKLSLSEGQLKISA 295
Query: 300 DNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFI 359
+NP+ G+A E + V Y+ ++I FN KYLL+++ + S +EV + +NS I
Sbjct: 296 NNPEQGEAEEELEVEYSGEELEIGFNVKYLLDVLKALDS-----EEVRLSFNDANSPFLI 350
Query: 360 RGKDKDSKNNKDNKVNAFYVLMPMRI 385
R D D + YV+MPMR+
Sbjct: 351 RPPDDD---------SFLYVIMPMRL 367
>gnl|CDD|128756 smart00480, POL3Bc, DNA polymerase III beta subunit.
Length = 345
Score = 253 bits (649), Expect = 5e-68
Identities = 125/352 (35%), Positives = 211/352 (59%), Gaps = 15/352 (4%)
Query: 17 ACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVC-GSITVSAHLLY 75
R+I +NTIP+ ++LL+A D L + A+ EI I +I A V+ GS+TV A
Sbjct: 1 VSRVISNRNTIPILSNILLEAKDDGLTLTATDLEISIKSSISAEVEDEEGSVTVPAKKFL 60
Query: 76 DIVRKLQDGAQISF-FKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELAS 134
DIVRKL D +I+ +E++L I+ G S F L + EFP E +FEL +
Sbjct: 61 DIVRKLPD-KEITLSVEEDKL----VITSGKSRFNLPTLDAEEFPELPFIEEGVTFELPT 115
Query: 135 SVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAK 194
+LK +E+T FA++T+E R LNG+ I+ +L+L VATDGHRLAV E+ + ++
Sbjct: 116 KLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRL--VATDGHRLAVREIKLESEEDD 173
Query: 195 MPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEFPNYQNVIP 254
S+I+PRK++ E+ ++L+ + V++ +S ++I ++ + RLIDGEFP+Y+ VIP
Sbjct: 174 F-SVIIPRKSLLELNKLLTDNEELVEIFISSNQILFETGNVIFTSRLIDGEFPDYKRVIP 232
Query: 255 CSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVY 314
+ +L VN L++A+ RV+++++ + ++VKL+L +L +T ++P++G+A E ++V
Sbjct: 233 KEFETKLTVNRKELKEALKRVALLANEKNRSVKLTLEEGQLKLTANSPEVGEAEEEVDVD 292
Query: 315 YNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDS 366
Y ++I FN KYLL+ + + S +E+ + S+S I D +
Sbjct: 293 YEGEDLEIAFNPKYLLDALKALKS-----EEIELKFTDSSSPFLISPPDDEK 339
>gnl|CDD|161984 TIGR00663, dnan, DNA polymerase III, beta subunit. University).
Length = 367
Score = 240 bits (614), Expect = 6e-64
Identities = 120/386 (31%), Positives = 199/386 (51%), Gaps = 22/386 (5%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIP-A 59
MK +ER D+L+ L R++ + TIP+ ++LL+ D L I A+ +I + I
Sbjct: 1 MKFIIERDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIFTI 60
Query: 60 SVDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFP 119
+ + GS+T++A DIVR L D S ++ I+ S F L + EFP
Sbjct: 61 NSEQEGSVTINAKKFLDIVRALPD----SKITLEVKNDKLAITSEKSRFKLPTLSAEEFP 116
Query: 120 STKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGH 179
+ E S E+ S VLK + +T FA +E R LNG+ I ++ L VATDGH
Sbjct: 117 NLPTIEEGVSIEIPSDVLKEAINQTAFAAGEDETRPVLNGV--LIEQKGKTLLLVATDGH 174
Query: 180 RLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239
RLAV ++ + S+I+P KA+ E+L++LS S V SL++ +++ + + +
Sbjct: 175 RLAVCKLKSEVSDEEDFSVIIPAKALNELLKLLSENGSVVLKSLNDQLVYIELGNYKFTS 234
Query: 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSS-VRIQAVKLSLSSDKLCMT 298
+LI+G +P+Y++VIP VN L++A+ RVS+++ R + LS + KL +
Sbjct: 235 KLIEGNYPDYKSVIPKEQKNSFTVNREELKEAIKRVSLLADEKRNLVLTLSENGKKLKES 294
Query: 299 VDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVF 358
D ++G+A E + V Y+ + I FN KYLL+ + + S E+ + + + +
Sbjct: 295 SDTQEIGEAEEEIEVAYDGEDLVIAFNIKYLLDALKALKS-----KEIQIQFNDPSKPLL 349
Query: 359 IRGKDKDSKNNKDNKVNAFYVLMPMR 384
I D K+ Y++MPMR
Sbjct: 350 IE-------PENDEKI--TYLIMPMR 366
>gnl|CDD|184907 PRK14943, PRK14943, DNA polymerase III subunit beta; Provisional.
Length = 374
Score = 191 bits (486), Expect = 3e-49
Identities = 106/395 (26%), Positives = 187/395 (47%), Gaps = 32/395 (8%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MK + + L L ++ K T+P+ +VL++A +G + + + ++ I I A+
Sbjct: 1 MKFKINKDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVIKAN 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPS 120
V G++T+ L IVR+L + + + + G S F + P EFP
Sbjct: 61 VLREGTVTLPVKKLATIVREL---PEAEVQVDANQNNQAKVESGGSQFKIMGIPAEEFPP 117
Query: 121 TKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHR 180
E F+L S L+++++ +A +T+E RY LNG++F N D KL VATDG R
Sbjct: 118 LPSFEQATVFQLEQSELRDMLKSVEYAQSTDETRYILNGVYF--NFRDGKLTLVATDGRR 175
Query: 181 LAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNI-------- 232
LA+AE ++ + I+P K VGE+ R+L K +K+ ++ + I
Sbjct: 176 LALAETELEFPEDQAGDAILPAKTVGELRRLLD-KGGKLKIRFNDRQAAFEISIGEDSSG 234
Query: 233 --ESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSL 290
+ +L++G +PNY+ VIP + +++ L + V R +++SS + +VKL
Sbjct: 235 LANDTYLISKLVEGNYPNYRQVIPKETKERIKLERELLLECVHRAALVSSDKSNSVKLKF 294
Query: 291 SSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRL 350
S + L + + +G+A ESM + Y+ + + FN + + + ++ DE
Sbjct: 295 SENLLEIASSSEGVGEAHESMAITYSGPELQVAFNPDFFMAPLKALTKDE---------- 344
Query: 351 DSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385
VF KD+ S V+MPMR+
Sbjct: 345 ------VFFELKDEMSPGVFKTLDEFLCVIMPMRL 373
>gnl|CDD|184904 PRK14940, PRK14940, DNA polymerase III subunit beta; Provisional.
Length = 367
Score = 173 bits (439), Expect = 8e-44
Identities = 100/384 (26%), Positives = 178/384 (46%), Gaps = 19/384 (4%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MKI E+ +L+ + A II K + + +VLL A DG L IKA+ ++ +IP +
Sbjct: 1 MKILCEKEALLKEISIAQEIISTKKALSILSNVLLAAQDGSLTIKATDTKVSFETSIPVN 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPS 120
+ GS TV I+ L G + +L + + +F L++ FP
Sbjct: 61 ILAEGSTTVFCDKFVGILSSLPTGEIELELCDEQL--VITPPNKKISFQLKTISHESFPC 118
Query: 121 TKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHR 180
E E SF + + L+ ++ +T FA++ +E RY++NG++ ++ VATDG R
Sbjct: 119 FPENEGGVSFAIPTKDLREMINQTIFAVSDDETRYFMNGVYVEFQYGNIIC--VATDGRR 176
Query: 181 LAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVR 240
LA + + + +IVP K +G I+ S + +V + ++ I S
Sbjct: 177 LAYIKKKGESSPQEFSGVIVPPKILG-IINKKLSPEGNVTLCITSQNIFFFFGGYKFSSV 235
Query: 241 LIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVD 300
LI+G+FPNY+ VIP ++ V L +A+ RVS++ + + + L++ L ++
Sbjct: 236 LIEGQFPNYKRVIPDHQERSFCVGRVELMEALKRVSLLVEQKSRRIFLTIQQGLLTLSSQ 295
Query: 301 NPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIR 360
++G A E + Y I NY YL E + +S EV + ++ +R
Sbjct: 296 ENEIGDAQEEIACAYTGEEEVIALNYLYLEEPLKVFTS-----KEVQVEFTEAAKAITLR 350
Query: 361 GKDKDSKNNKDNKVNAFYVLMPMR 384
+ + F+++MPM+
Sbjct: 351 PVPET---------DCFHIIMPMQ 365
>gnl|CDD|184909 PRK14945, PRK14945, DNA polymerase III subunit beta; Provisional.
Length = 362
Score = 147 bits (372), Expect = 6e-36
Identities = 94/348 (27%), Positives = 179/348 (51%), Gaps = 26/348 (7%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
M + V + + E LG RII +++ P+ ++ ++ ++G L + + E+++ +PA
Sbjct: 1 MNVRVPKKTLSEGLGLLERIIPSRSSNPLLTYLKVELSEGGLTLSGTNGEVDLEVTLPAE 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQ-DGAQISFFKENELGTEVNISHGDSNFYLQS-----FP 114
V G + V AHL + IVR L + ++ F G E+ + G S LQ+ +P
Sbjct: 61 VQGPGRVVVPAHLFFQIVRNLPGELVELEF-----QGGELEVRSGSSRTKLQTAPPEGYP 115
Query: 115 ESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAV 174
E FPS + L++ L + +A + EE + G+ + + L+ AV
Sbjct: 116 ELSFPSQGDVR------LSAGELAKALTHVRYAASNEEFQAIFRGVKLEHSPQGLR--AV 167
Query: 175 ATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIES 234
A+DG+RLA+ D+ A + +++P ++ E++R+L D ++L E + L
Sbjct: 168 ASDGYRLAIY--DLPASQGQGRKLVIPARSADELVRVLKDGDE-ASLALGEGVLTLTTGG 224
Query: 235 LSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRI-QAVKLSLSSD 293
+ M+++L++GEFP+Y+ VIP ++ + LR+AV+RV+++S V+L ++
Sbjct: 225 VRMNLKLMEGEFPDYERVIPQDFKLQVTLPAEALREAVNRVAVLSDRNANNRVELLVAEG 284
Query: 294 KLCMTVDNPDMGKAIESMNVY--YNECPMDICFNYKYLLEIIDNISSD 339
+L +T + D G+ E + V +E M + +N +YLL+ + I D
Sbjct: 285 RLRLTAEG-DYGRGQEELAVTQEGSEPAMALAYNARYLLDALAPIEGD 331
>gnl|CDD|181105 PRK07761, PRK07761, DNA polymerase III subunit beta; Validated.
Length = 376
Score = 134 bits (339), Expect = 5e-32
Identities = 103/402 (25%), Positives = 179/402 (44%), Gaps = 45/402 (11%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MK VER + + + R + + +PV VLL+A+DG L + E+ I A
Sbjct: 1 MKFRVERDVLADAVAWVARSLPARPPVPVLAGVLLEADDGGLTLSGFDYEVSARVTIEAE 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPS 120
VD G + VS LL DI R L + + + G+ V ++ G + F L + P ++P+
Sbjct: 61 VDEPGRVLVSGRLLADITRSLPN-KPVDISVD---GSRVTLTCGSARFTLPTMPVEDYPT 116
Query: 121 --TKEEEY--VYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVAT 176
E V + A +V + V A ++ L G+ I + + L AT
Sbjct: 117 LPELPEATGTVDADAFAEAVSQVAV-----AAGRDDTLPMLTGVRVEIEGDTVTL--AAT 169
Query: 177 DGHRLAVAEV-------DIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLS----- 224
D +RLAV E+ DI A + +VP + + + + L S +V ++LS
Sbjct: 170 DRYRLAVRELTWKPASPDISA------AALVPARTLSDTAKSLGS-GGNVSIALSTGVGG 222
Query: 225 ESRIHLNIESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQ 284
E I + RL+DGEFP + + P + V L +A+ RV++++ R
Sbjct: 223 EGLIGFEGGGRRTTTRLLDGEFPKVRRLFPDEHPAVAVVETAPLIEAIKRVALVAE-RNA 281
Query: 285 AVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDD 344
V+L S +L ++ D +A E++ + I FN +YLL+ + + +
Sbjct: 282 PVRLEFSDGQLTLSAGGGDDAQASEALEADLTGEDLTIAFNPQYLLDGLSALHT-----P 336
Query: 345 EVVFRLDSSNSSVFIRGK-DKDSKNNKDNKVNAFYVLMPMRI 385
V F + + + G+ + D + + D + Y+LMP+R+
Sbjct: 337 RVRFGFTTPSKPALLTGQPEDDGEPSTDYR----YLLMPVRL 374
>gnl|CDD|184905 PRK14941, PRK14941, DNA polymerase III subunit beta; Provisional.
Length = 374
Score = 122 bits (308), Expect = 1e-28
Identities = 95/390 (24%), Positives = 187/390 (47%), Gaps = 23/390 (5%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MK T + E + + I K+ P ++ L +G L + A+ E+ IT
Sbjct: 1 MKFTSSIKQLQEAVNKVAQAIPAKSIDPRFENIHLTLENGKLTLFATDGELSITAKTEVE 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQDGAQISFFKE----NELGTEVNISHGDSNFYLQSFPES 116
G+I + A L D +R + D +++F E ++ GT V+I+ + + ES
Sbjct: 61 SSDSGNIGIRARTLQDFLRSMYD-TEVTFSIERQEISDHGT-VHIATDKGRYKIPCLFES 118
Query: 117 EFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVAT 176
+ P +E+ + S +L +S L +L+++T FA + + +R + G+ F + + AV+T
Sbjct: 119 K-PEKQEKNFDISLDLETSELLDLIQKTIFACSVDGMRPAMMGVLFELEGN--TITAVST 175
Query: 177 DGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLS 236
DGHRL + + + I+VP + + + ++ + ++ + + ++
Sbjct: 176 DGHRLVRCRKNSSVGVEEKQKIVVPARVLSILQKLAQHETVTMSIDSERRFVRFICGNVV 235
Query: 237 MSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLC 296
+ LI +PNY+ VIP NDK+L +N +N+ +V RV SS I +K+S+ L
Sbjct: 236 LDAALIVEPYPNYEAVIPVENDKKLVINRSNIYDSVKRVGRFSS--IGDIKISVEGSVLK 293
Query: 297 MTVDNPDMGK-AIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNS 355
+ +N + G+ A E + Y + I FN K++ + ++ ++E++ L S +
Sbjct: 294 VMAENTNEGESAQEELPCSYTGEDITIGFNSKFIEAALAHLD-----EEEIIIELSSPTT 348
Query: 356 SVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385
+V + K ++N + ++MP+RI
Sbjct: 349 AVIFK-----PKKEEEND-DLIILVMPVRI 372
>gnl|CDD|184906 PRK14942, PRK14942, DNA polymerase III subunit beta; Provisional.
Length = 373
Score = 119 bits (299), Expect = 1e-27
Identities = 89/391 (22%), Positives = 183/391 (46%), Gaps = 24/391 (6%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
MKI V S+ L+ + +I + + ++ ++A + + + A+ EI I ++PA+
Sbjct: 1 MKIKVNTSEFLKAIHAVEGVISVREIKSILSNLKIEAEEKEVFLSATDLEISIKTSVPAT 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQ-DGAQISFFKENELGTEVNISHG----DSNFYLQSFPE 115
V G+ ++ A L + + + +S + + + V I+ D +
Sbjct: 61 VGQKGTASLPAKQLSSFFKTIHFETTLLSLEESDSESSIVYITDASGKNDYKSKISGMDA 120
Query: 116 SEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVA 175
E + + + S ++ +++ +T +A+A E+ R+ NG++ + L V
Sbjct: 121 EEIKTISKVDESQVSSFPSQLINDMIRKTSYAIAHEDQRFIFNGLYMIPDGTKLIF--VG 178
Query: 176 TDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESL 235
TDG RL E + + + SIIVP KAV EI +++++ ++ + L + +I+++ ++
Sbjct: 179 TDGRRLCKIERTLPSPLQFKDSIIVPAKAVREISKMIATSETG-NIGLIDEQIYVSANNI 237
Query: 236 SMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKL 295
+ +LI+G FPNY+ VIP +R++ + ++ +V + + V+L+ S + L
Sbjct: 238 ELLCKLIEGNFPNYEQVIPKQTKFSVRISKEEFQVSLRQVLTAAEEPSRQVRLTFSKNNL 297
Query: 296 CMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNS 355
+ +A +M + Y+ + I F +YL++I +I D+EV S+S
Sbjct: 298 NLFAQTLGASEADINMPIEYSGEEITIAFKGEYLMDIFRSID-----DNEVKIEFSDSSS 352
Query: 356 SVFIRGKDKDSKNNKDNKVNAFY-VLMPMRI 385
V KD F V+MPM++
Sbjct: 353 PVIF----------KDPSDPEFISVIMPMKL 373
>gnl|CDD|135998 PRK06673, PRK06673, DNA polymerase III subunit beta; Validated.
Length = 376
Score = 109 bits (274), Expect = 1e-24
Identities = 92/353 (26%), Positives = 166/353 (47%), Gaps = 20/353 (5%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
M+ V + L + I K IP+ + + A+ + + AS I I IP++
Sbjct: 1 MEFIVNHKHFTQALSEVSKAISTKAIIPILSGIKITADQSGITLIASNSNIFIEKFIPSA 60
Query: 61 VD--------VCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQS 112
+D G+I V A +I++K+ + I +NE + I G+ L
Sbjct: 61 IDDEQITTILQAGTIVVPAKYFIEIIKKMP--SDIVIKSKNE--QTITIQSGEITLNLNG 116
Query: 113 FPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLC 172
FP +EFP+ + + ++ + L + ++T FA+A E R L G+ HI + KL
Sbjct: 117 FPANEFPNVPQIDDHTEIQIETKQLIDAFKQTVFAVAKNESRPVLTGV--HIELDHNKLI 174
Query: 173 AVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNI 232
ATD HRLA+ E I + + IVP + E+L++++S V + LSES I
Sbjct: 175 CAATDSHRLAIRETLISTNMKA--NCIVPSATINELLKLMNSNLEFVSIYLSESHIIFTF 232
Query: 233 ESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRI-QAVKLSLS 291
+ ++ RLI+G++PN +IP + ++ + Q VDR S+++S V L +
Sbjct: 233 GTTTLYSRLIEGKYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLASEWANNNVNLEIV 292
Query: 292 SDKLCMTVDNPD-MGKAIES--MNVYYNECPMDICFNYKYLLEIIDNISSDEV 341
++ N +GK E+ ++ E ++I F+ +++L+ + I + V
Sbjct: 293 NESTIQISSNASQIGKISETQQIDAIQGEKQLNISFDGRFMLDALRAIKEETV 345
>gnl|CDD|184911 PRK14947, PRK14947, DNA polymerase III subunit beta; Provisional.
Length = 384
Score = 94.8 bits (236), Expect = 4e-20
Identities = 100/405 (24%), Positives = 182/405 (44%), Gaps = 52/405 (12%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS 60
M + V + D+++ L A II K + L+A DG L I ++ IE G PA
Sbjct: 1 MYLKVNKEDVIDGLQKAANIIPAKTGAAYLRTIWLKAEDGTLSIMSTDSNIEFRGTYPAE 60
Query: 61 VDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHG---------DSNFYLQ 111
V G V D+VRKL G +I+ + G + I G D +++ Q
Sbjct: 61 VTEPGLAGVQGRAFVDLVRKLPPG-EITLKLDASSGN-LLIEQGRRKYKLPVNDPSWF-Q 117
Query: 112 SFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFH-INEEDLK 170
+F S FP+ E V+S + L+ L++R F ++ E+ + + + + ++
Sbjct: 118 NF--SAFPA--EGAVVWSGDF----LQELIDRIAFCISDEDAMEAIACLKIKPVADNAIE 169
Query: 171 LCAVATDGHRLAVAEV---DIVAQIAKMPS--IIVPRKAVGEILRILSSKDSSVKVSLSE 225
+C + +GH+ A+ DI AK+P I++ +K + E+ + L + + +++S+SE
Sbjct: 170 VCGL--NGHQFALLRFLNDDIH---AKLPQEGILIQKKYLLELKKWLGADE--IELSISE 222
Query: 226 SRIHLNIESL--SMSVRLIDGEFPNYQNVIPCSNDKE---LRVNCTNLRQAVDRVSIMSS 280
R+ + S+ L ++P+Y N + + L V+ A+DR+ I ++
Sbjct: 223 KRLFFRTGDGKETFSLPLSYYQYPDYMNFLSKLQGDDVSNLEVDRKECMDALDRILIFNT 282
Query: 281 VRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDE 340
+ +L ++ D+G A ES+ V Y+ I F K L+EI+ + S
Sbjct: 283 DNNRCTYFDFGPGELSLSAQGQDVGSATESLEVTYSGDIKKIAFPTKNLIEILGHFQS-- 340
Query: 341 VVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385
D++ L + I G+D + D V ++MPM+I
Sbjct: 341 ---DKITLTLTGAEGPCGITGED-----DPDYLV----IVMPMKI 373
>gnl|CDD|184908 PRK14944, PRK14944, DNA polymerase III subunit beta; Provisional.
Length = 375
Score = 75.3 bits (185), Expect = 3e-14
Identities = 81/355 (22%), Positives = 160/355 (45%), Gaps = 22/355 (6%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAI--- 57
M + + + LE L +I+ +K P+ + +Q L ++A+ I I I
Sbjct: 1 MYLEINKDIFLEQLLKIQKILPQKTFFPIFNALKIQTKKNFLILEANNGNIAIKIEIKDE 60
Query: 58 PASVDVCGSITVSAHLLYDIVRKLQDGA-QISFFKENELGTEVNISHGDSNFY-LQSFPE 115
+ G I +I++K+ D +++ + N L + L +F E
Sbjct: 61 SLKIKKEGKIACLGRYFIEIIKKINDSLIKMTVMENNFLVIKTEFCEYKLKLMDLCNFLE 120
Query: 116 SEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVA 175
+F K+E FE+ + K +++ + + + E R L G+ + LK A
Sbjct: 121 LDFFFEKKE----FFEIKTHFFKKIIKEINISTSKNEKRPILTGLNLIYQKNLLKAL--A 174
Query: 176 TDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILS-SKDSSVKVSLSESRIHLNIES 234
TD R++ ++ + +I++P K++ E+ +IL + ++K+ +I L I++
Sbjct: 175 TDSFRMSQKKIKLDFNYHNF-NIVIPNKSLEELSKILEYYQSKNLKIYSDSKKIFLKIDN 233
Query: 235 LSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSS---VRIQAVKLSLS 291
L L++G +P Q + + + +N +L +A++RVS++ S VK L+
Sbjct: 234 LWFQTSLLEGNYPQIQEIKLTNFPFSIHLNKDDLMKALERVSLLFSKEQNNTNVVKFILT 293
Query: 292 SDKLC-MTVDNPDMGKAIES---MNVYYNECPMDICFNYKYLLEIIDNISSDEVV 342
+K ++ N +G A+E + V N +I FN KYL +I+ +S E+V
Sbjct: 294 KEKSIEISSSNESLGTALEKIIPLKVSANS--FEIAFNAKYLEDILKVLSVKEIV 346
>gnl|CDD|184910 PRK14946, PRK14946, DNA polymerase III subunit beta; Provisional.
Length = 366
Score = 63.0 bits (153), Expect = 1e-10
Identities = 80/381 (20%), Positives = 157/381 (41%), Gaps = 31/381 (8%)
Query: 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPA- 59
MK T+E+ I + + I P+S L GL I + E+ I
Sbjct: 1 MKFTIEKEIIEKQIERMQSAILNNGNSPLSGFFLKLTRSGLFIISTNS-ELSYKSFINKK 59
Query: 60 ---SVDVCGSITVSAHLLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPES 116
++ GS + L +I++K + QISF +G+E+ + D+ F S
Sbjct: 60 DLIEINDVGSCLIDGVFLKNIIKKSDN--QISF---ELIGSELKVFWEDAQFSKTLRDSS 114
Query: 117 EFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVAT 176
FP E+ + + LK ++ T FA + L+ I ++ ED L AT
Sbjct: 115 FFPEINFEQKGIKLTVNAKNLKRAIKNTAFATTNNPNQPILSAI--NLKSEDNFLHFSAT 172
Query: 177 DGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLS 236
D R A +++I I + K + + I D +++ + S+I ++L+
Sbjct: 173 DTIRFASEKIEISNPSRI--DISISAKNLKDF--IPPELDKDIELFIESSKISYTYDNLT 228
Query: 237 MSVRLIDGEFPNYQNVIPCSND--KELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDK 294
+ R+ E+ + NV+P ++ L + + +D+ +I++ + + SLS ++
Sbjct: 229 IQSRIFTIEYKDISNVLPKDSEILYSLTIEKKEILDLIDKATIITPGKDNVINFSLSKNE 288
Query: 295 LCMTVDNPDMGKA-IESMNV-YYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDS 352
L + + G++ +++ NV ++ + NYKYL + I V D + ++
Sbjct: 289 LKGYISQYESGQSNVKTKNVLRFSGELAQVNVNYKYLKDAIS------VFDKVINIFINE 342
Query: 353 SNSSVFIRGKDKDSKNNKDNK 373
+ + I S K+
Sbjct: 343 KKTKMLI-----VSPEKKEIC 358
>gnl|CDD|115540 pfam06890, Phage_Mu_Gp45, Bacteriophage Mu Gp45 protein. This
family consists of Bacteriophage Mu Gp45 related
proteins from both phages and bacteria. The function of
this family is unknown although it has been suggested
that family members may be involved in baseplate
assembly.
Length = 162
Score = 29.7 bits (67), Expect = 1.4
Identities = 17/66 (25%), Positives = 24/66 (36%), Gaps = 2/66 (3%)
Query: 15 GHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVCGSITVSAHLL 74
GH R+ I +C PE E TG + + D G+IT S +
Sbjct: 87 GHRVRLTRDGRVINGACKTFTIYAAQSATFDT--PETEFTGDVEDTCDSGGTITASDRQI 144
Query: 75 YDIVRK 80
Y+I
Sbjct: 145 YNISYS 150
>gnl|CDD|182206 PRK10044, PRK10044, ferrichrome outer membrane transporter;
Provisional.
Length = 727
Score = 29.0 bits (65), Expect = 2.0
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 43 EIKASGPEIEITGAIPASVDVCGSIT 68
EI+A G E+E A+ A+V+V GS T
Sbjct: 577 EIRARGVELEAKAALSANVNVTGSYT 602
>gnl|CDD|177932 PLN02295, PLN02295, glycerol kinase.
Length = 512
Score = 27.4 bits (61), Expect = 5.9
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 9/63 (14%)
Query: 13 LLGHACRIIERKNTIPVSCHVLL-------QANDGLLEIKA--SGPEIEITGAIPASVDV 63
+LG CR E K+T C +LL + GLL A GP+ A+ SV +
Sbjct: 254 MLGQRCRPGEAKSTYGTGCFILLNTGEEVVPSKHGLLTTVAYKLGPDAPTNYALEGSVAI 313
Query: 64 CGS 66
G+
Sbjct: 314 AGA 316
>gnl|CDD|182624 PRK10658, PRK10658, putative alpha-glucosidase; Provisional.
Length = 665
Score = 27.2 bits (61), Expect = 6.7
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 10/42 (23%)
Query: 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLK 170
SFE+ S V + F++ E + Y++ I+ K
Sbjct: 216 SFEVGSEK----VSKVQFSVEGEYLEYFV------IDGPTPK 247
>gnl|CDD|150764 pfam10127, Nuc-transf, Predicted nucleotidyltransferase. Members
of this family of bacterial proteins catalyze the
transfer of nucleotide residues from nucleoside
diphosphates or triphosphates into dimer or polymer
forms.
Length = 247
Score = 27.3 bits (61), Expect = 7.6
Identities = 16/46 (34%), Positives = 16/46 (34%), Gaps = 10/46 (21%)
Query: 17 ACRIIERKNTIP----------VSCHVLLQANDGLLEIKASGPEIE 52
A R I R T P V LL D LL K G E E
Sbjct: 160 AGRWILRTGTPPPMEFQVLLAGVLDGSLLAEIDELLARKRGGEEKE 205
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
0.318 0.134 0.374
Gapped
Lambda K H
0.267 0.0652 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,953,527
Number of extensions: 375071
Number of successful extensions: 728
Number of sequences better than 10.0: 1
Number of HSP's gapped: 677
Number of HSP's successfully gapped: 33
Length of query: 385
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 290
Effective length of database: 3,941,713
Effective search space: 1143096770
Effective search space used: 1143096770
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: 58 (26.3 bits)