RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4
(150 letters)
>gnl|CDD|220441 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria
(DUF2076). This domain, found in various hypothetical
prokaryotic proteins, has no known function. The domain,
however, is found in various periplasmic ligand-binding
sensor proteins.
Length = 234
Score = 40.0 bits (94), Expect = 1e-04
Identities = 23/109 (21%), Positives = 30/109 (27%), Gaps = 14/109 (12%)
Query: 30 GHSRASPAPAPRPTPATPA--------PVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
G + P AP P P Q P A + A TA GVA
Sbjct: 89 GGAPRPPPAAPAVQPPAPPARPGWGSGGPSQQGAGQQPGYAQPGPGSFLGGAAQTAAGVA 148
Query: 82 IGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTG 130
G +G+ + +F G A A G A +
Sbjct: 149 GGMLLGNGL----ENLFGGHSQ--PAEIVDAIGEGGDGSGPAPADDTGI 191
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 39.2 bits (92), Expect = 4e-04
Identities = 26/111 (23%), Positives = 34/111 (30%)
Query: 21 GRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
+ + + +PA A A PAP A PAP AP A A
Sbjct: 397 AAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSP 456
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
+A A + + AP A APA A + AA
Sbjct: 457 PPAAAPSAQPAPAPAAAPEPTAAPAPAPPAAPAPAAAPAAPAAPAAPAGAD 507
Score = 38.0 bits (89), Expect = 0.001
Identities = 30/111 (27%), Positives = 40/111 (36%)
Query: 21 GRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
G + +P + S A+ APA P PA AP A PA P P + AG
Sbjct: 389 GGAGAPAAAAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNA 448
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
G A A + + + + P A APAP +A A
Sbjct: 449 PAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAPAPAPPAAPAPAAAPAAPAA 499
Score = 36.9 bits (86), Expect = 0.002
Identities = 28/116 (24%), Positives = 35/116 (30%)
Query: 16 KMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAA 75
P+P S G + PA PA PA AP A +A
Sbjct: 593 GAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEH 652
Query: 76 TAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
VA+ A G + + APA A APA +Q A P
Sbjct: 653 HPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAAT 708
Score = 33.4 bits (77), Expect = 0.030
Identities = 22/108 (20%), Positives = 32/108 (29%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
P+P + A + AP P A P +P P A A A
Sbjct: 627 PAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPA 686
Query: 84 SAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
A A + + + PA Q +Q A+ P+ A
Sbjct: 687 PAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPA 734
Score = 33.4 bits (77), Expect = 0.034
Identities = 23/102 (22%), Positives = 28/102 (27%), Gaps = 2/102 (1%)
Query: 27 VSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAV 86
+ R A A AP + A AAP AA +
Sbjct: 381 LERRLGVAGGAGAPAAAAPSAAAAAPAAAPAPAAAAPAAAAA--PAPAAAPQPAPAPAPA 438
Query: 87 GHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEP 128
A G+ S A A A PAPA + A P
Sbjct: 439 PAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAP 480
Score = 33.0 bits (76), Expect = 0.039
Identities = 28/124 (22%), Positives = 37/124 (29%)
Query: 8 PSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
P+P ++ + S P A+PA P PA A P + AP
Sbjct: 590 PAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAA 649
Query: 68 GLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAE 127
+ G AAPAAPA APA + +A
Sbjct: 650 PEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATP 709
Query: 128 PTGA 131
P G
Sbjct: 710 PAGQ 713
Score = 32.7 bits (75), Expect = 0.060
Identities = 21/127 (16%), Positives = 31/127 (24%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
+ + P + A APAP A PA A P
Sbjct: 594 AAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHH 653
Query: 65 QGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQS 124
+ + G + + + A A APAPA +
Sbjct: 654 PKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQ 713
Query: 125 AAEPTGA 131
A +P
Sbjct: 714 ADDPAAQ 720
Score = 31.5 bits (72), Expect = 0.13
Identities = 24/108 (22%), Positives = 29/108 (26%), Gaps = 18/108 (16%)
Query: 20 RGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGG 79
+P+ + +PAPAP A PA + Q P A TA
Sbjct: 421 AAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAP 480
Query: 80 VAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAE 127
A A AAPAAPA A
Sbjct: 481 APAPPAAP------------------APAAAPAAPAAPAAPAGADDAA 510
Score = 31.5 bits (72), Expect = 0.14
Identities = 28/111 (25%), Positives = 34/111 (30%), Gaps = 1/111 (0%)
Query: 21 GRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
G +P A + P A PA A AP A A A G
Sbjct: 589 GPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVA 648
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
A H + G +K A AAPAAP PA + +A
Sbjct: 649 APEHHPKHVAVPDASDGGDGWPAK-AGGAAPAAPPPAPAPAAPAAPAGAAP 698
Score = 31.1 bits (71), Expect = 0.20
Identities = 24/132 (18%), Positives = 33/132 (25%), Gaps = 5/132 (3%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
V++ + P G + A P PAP A P PA A Q
Sbjct: 641 AAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQ 700
Query: 65 QGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDS-----KEAAPAAPAAPAPAYQ 119
P A A G + + + P APA
Sbjct: 701 PAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPP 760
Query: 120 QGSQSAAEPTGA 131
+ + A A
Sbjct: 761 PPAPAPAAAPAA 772
Score = 30.7 bits (70), Expect = 0.27
Identities = 23/100 (23%), Positives = 27/100 (27%), Gaps = 16/100 (16%)
Query: 18 VRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATA 77
+P P +P PA AP P+ AP A
Sbjct: 423 PAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAPAP 482
Query: 78 GGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPA 117
A + AAPAAPAAPA A
Sbjct: 483 APPAAPAPAAA----------------PAAPAAPAAPAGA 506
Score = 30.3 bits (69), Expect = 0.34
Identities = 27/129 (20%), Positives = 37/129 (28%), Gaps = 2/129 (1%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
G P + P+ + + A+PAPA A P + AP P+
Sbjct: 596 GGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPK 655
Query: 65 QGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEA--APAAPAAPAPAYQQGS 122
A G A A + + A PA A P Q
Sbjct: 656 HVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQAD 715
Query: 123 QSAAEPTGA 131
AA+P A
Sbjct: 716 DPAAQPPQA 724
Score = 30.3 bits (69), Expect = 0.40
Identities = 18/124 (14%), Positives = 24/124 (19%), Gaps = 2/124 (1%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
P + +P + + A APA A P A P A
Sbjct: 659 VPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPA 718
Query: 67 PGLMAQMAATAGGVAIGSAVG--HTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQS 124
+ PA A APA
Sbjct: 719 AQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSP 778
Query: 125 AAEP 128
+E
Sbjct: 779 PSEE 782
Score = 27.3 bits (61), Expect = 4.0
Identities = 13/106 (12%), Positives = 18/106 (16%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
A+P PA P AQ AA P A
Sbjct: 697 APAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPA 756
Query: 84 SAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPT 129
+ + A A + +
Sbjct: 757 QPPPPPAPAPAAAPAAAPPPSPPSEEEEMAEDDAPSMDDEDRRDAE 802
Score = 27.3 bits (61), Expect = 4.1
Identities = 14/55 (25%), Positives = 16/55 (29%)
Query: 19 RRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQM 73
+PS A+P P P PA PA AP A A
Sbjct: 457 PPAAAPSAQPAPAPAAAPEPTAAPAPAPPAAPAPAAAPAAPAAPAAPAGADDAAT 511
Score = 26.5 bits (59), Expect = 6.7
Identities = 23/109 (21%), Positives = 27/109 (24%), Gaps = 10/109 (9%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIG- 91
A PAP P A P A P A A G A A
Sbjct: 585 EAVVGPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPA 644
Query: 92 ---------HAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
+ SD + PA APA + + A P
Sbjct: 645 PGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAP 693
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 37.2 bits (87), Expect = 0.002
Identities = 18/91 (19%), Positives = 27/91 (29%), Gaps = 5/91 (5%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIG 91
+ P P P A PA P AP Q P + A+ T
Sbjct: 362 AAPLPEPEVPPQSAAPAASAQATAAPTAAVAPPQAPAVPPPPASAPQQAPAVPLPETTSQ 421
Query: 92 -----HAVTGMFSGSDSKEAAPAAPAAPAPA 117
+ + +K++ PAA + P
Sbjct: 422 LLAARQQLQRAQGATKAKKSEPAAASRARPV 452
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 36.1 bits (83), Expect = 0.004
Identities = 39/115 (33%), Positives = 43/115 (37%), Gaps = 2/115 (1%)
Query: 3 RRGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAA 62
R GR+ S + RR P+ S P P P P PA A V A P P P AA
Sbjct: 2669 RLGRAAQASSPPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAA 2728
Query: 63 PQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPA 117
Q P L A A A V G A + A PAAPAA P
Sbjct: 2729 RQASPALPAAPAPPA--VPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPR 2781
Score = 31.8 bits (72), Expect = 0.13
Identities = 29/139 (20%), Positives = 40/139 (28%), Gaps = 8/139 (5%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMA-- 61
R + P + VRR P+ S A P P P AP QP P
Sbjct: 2869 RSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQ 2928
Query: 62 ---APQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDS---KEAAPAAPAAPA 115
P P +A T G G + + G + AP+ A
Sbjct: 2929 PQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREA 2988
Query: 116 PAYQQGSQSAAEPTGACAW 134
PA + + +W
Sbjct: 2989 PASSTPPLTGHSLSRVSSW 3007
Score = 29.5 bits (66), Expect = 0.79
Identities = 29/125 (23%), Positives = 41/125 (32%), Gaps = 4/125 (3%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
R + V+S + SP + + A P A+PA PT P AP
Sbjct: 2781 RRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQP-TAP 2839
Query: 64 QQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQ 123
PG G VA G V + + + A P PA + ++
Sbjct: 2840 PPPPGPPPPSLPLGGSVAPGGDVRR---RPPSRSPAAKPAAPARPPVRRLARPAVSRSTE 2896
Query: 124 SAAEP 128
S A P
Sbjct: 2897 SFALP 2901
Score = 27.2 bits (60), Expect = 3.9
Identities = 29/105 (27%), Positives = 33/105 (31%), Gaps = 12/105 (11%)
Query: 37 APAPRPTPATPA-----------PVQAQPTMPAPMAAPQQGPGLMAQMAATAG-GVAIGS 84
APAP PA PA P A P PAP AAP GP A A + S
Sbjct: 2738 APAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES 2797
Query: 85 AVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPT 129
+ A+PA P P +A P
Sbjct: 2798 LPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP 2842
Score = 26.8 bits (59), Expect = 5.2
Identities = 20/76 (26%), Positives = 26/76 (34%), Gaps = 1/76 (1%)
Query: 3 RRGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRP-TPATPAPVQAQPTMPAPMA 61
R +P R +P P S +P PA P PATP P + P
Sbjct: 389 RHAATPFARGPGGDDQTRPAAPVPASVPTPAPTPVPASAPPPPATPLPSAEPGSDDGPAP 448
Query: 62 APQQGPGLMAQMAATA 77
P++ P A A
Sbjct: 449 PPERQPPAPATEPAPD 464
Score = 26.4 bits (58), Expect = 8.2
Identities = 16/94 (17%), Positives = 23/94 (24%)
Query: 22 RSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
+S P + R P P+P P P P+P A +
Sbjct: 2594 QSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPR 2653
Query: 82 IGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPA 115
A G + + P P A
Sbjct: 2654 DDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRA 2687
Score = 26.1 bits (57), Expect = 9.4
Identities = 21/112 (18%), Positives = 35/112 (31%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
+P+P + G P + PAPAP PA P + A ++ ++
Sbjct: 2738 APAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES 2797
Query: 67 PGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAY 118
A V +A + + ++ AP P P P
Sbjct: 2798 LPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPS 2849
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 35.8 bits (83), Expect = 0.005
Identities = 28/126 (22%), Positives = 42/126 (33%), Gaps = 1/126 (0%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
+ + + K R + +P + ++A+ APAP PA A A P A AP
Sbjct: 367 AAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPP-AAAPPAP 425
Query: 64 QQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQ 123
P A AA A A + A + PA +A +
Sbjct: 426 VAAPAAAAPAAAPAAAPAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAA 485
Query: 124 SAAEPT 129
+ PT
Sbjct: 486 ARLTPT 491
Score = 28.5 bits (64), Expect = 1.6
Identities = 19/93 (20%), Positives = 25/93 (26%), Gaps = 1/93 (1%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
P+ + + A RP A PA AP A + AA
Sbjct: 366 PAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAP-AAAASAPAAPPAAAPPA 424
Query: 84 SAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAP 116
+ + APA PA AP
Sbjct: 425 PVAAPAAAAPAAAPAAAPAAVALAPAPPAQAAP 457
Score = 26.6 bits (59), Expect = 6.1
Identities = 27/102 (26%), Positives = 33/102 (32%), Gaps = 10/102 (9%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGH 92
A+ A TPA +A AP+A P A AA A A A
Sbjct: 367 AAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAP---- 422
Query: 93 AVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACAW 134
+ AA A AAPA A + + A P A
Sbjct: 423 ------PAPVAAPAAAAPAAAPAAAPAAVALAPAPPAQAAPE 458
>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 700
Score = 36.0 bits (83), Expect = 0.005
Identities = 24/110 (21%), Positives = 34/110 (30%), Gaps = 4/110 (3%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
P+P + + A+PAPA P AP A A ++ P A AA
Sbjct: 385 PAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGP 444
Query: 84 SAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACA 133
+ + AA P A + + A P A A
Sbjct: 445 GGAPA----PAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPA 490
Score = 34.5 bits (79), Expect = 0.016
Identities = 33/102 (32%), Positives = 38/102 (37%), Gaps = 1/102 (0%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGH 92
A+ AP +P PA AP A P AP AAP P A A A A S +
Sbjct: 376 TAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAA 435
Query: 93 AVTGMFSGSDSKEAAPAAPAA-PAPAYQQGSQSAAEPTGACA 133
A G A APAA PA A + + A A
Sbjct: 436 ARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAA 477
Score = 30.2 bits (68), Expect = 0.39
Identities = 33/139 (23%), Positives = 39/139 (28%), Gaps = 15/139 (10%)
Query: 6 RSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPAT------PAPVQAQPTMPAP 59
RSP+P + R P + APA PA A A P AP
Sbjct: 426 RSPAPEALAAARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAP 485
Query: 60 MAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEA---------APAA 110
AAP A + A S D A APA
Sbjct: 486 AAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGWVAESIPDPATADPDDAFETLAPAP 545
Query: 111 PAAPAPAYQQGSQSAAEPT 129
AAPAP ++ P
Sbjct: 546 AAAPAPRAAAATEPVVAPR 564
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 35.5 bits (82), Expect = 0.006
Identities = 16/56 (28%), Positives = 18/56 (32%)
Query: 26 PVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
P + PA AP PA PA A PAP P + A A
Sbjct: 392 PTPAAPAAPPPAAAPPVPPAAPARPAAARPAPAPAPPAAAAPPARSADPAAAASAG 447
Score = 27.0 bits (60), Expect = 4.2
Identities = 23/104 (22%), Positives = 27/104 (25%), Gaps = 31/104 (29%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIG 91
A P+ TPA A P AP P A A
Sbjct: 379 RGAPAPPSAAWGAPTPAAPAAPPPAAAPPVPPAAPARPAAARPA---------------- 422
Query: 92 HAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACAWE 135
APA PAA AP + +AA + W
Sbjct: 423 --------------PAPAPPAAAAPPARSADPAAA-ASAGDRWR 451
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 34.8 bits (80), Expect = 0.013
Identities = 15/46 (32%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPA-TPAPVQAQPTMPAPMAAPQQGP 67
SPSP + AP PA TP V P P+ P P
Sbjct: 399 SPSPSQSSAAAQPSAPQSATQPAGTPPTVSVDPPAAVPVNPPSTAP 444
Score = 27.0 bits (60), Expect = 4.1
Identities = 8/41 (19%), Positives = 15/41 (36%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
P+ + + A+ +P+P + A P Q P
Sbjct: 386 PAAAPQPSAAAAASPSPSQSSAAAQPSAPQSATQPAGTPPT 426
>gnl|CDD|235571 PRK05704, PRK05704, dihydrolipoamide succinyltransferase;
Validated.
Length = 407
Score = 33.7 bits (78), Expect = 0.027
Identities = 30/98 (30%), Positives = 36/98 (36%), Gaps = 6/98 (6%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHA 93
A+ A A A AP QAQ A + P A+ A G+ + G G
Sbjct: 84 AAAAAAAAAAAAAAAPAQAQAAAAAEQSNDALSPA--ARKLAAENGLDASAVKGTGKGGR 141
Query: 94 VTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
VT D A AA AAPA +A P GA
Sbjct: 142 VTK----EDVLAALAAAAAAPAAPAAAAPAAAPAPLGA 175
Score = 32.9 bits (76), Expect = 0.050
Identities = 24/97 (24%), Positives = 36/97 (37%), Gaps = 7/97 (7%)
Query: 27 VSRGHSRASPAPAP-RPTPATPAPVQAQPTMPAPMAAPQQGPG---LMAQMAATAGGVAI 82
+ G + + A A A AP QAQ A + P L A+ A V
Sbjct: 76 IDEGAAAGAAAAAAAAAAAAAAAPAQAQAAAAAEQSNDALSPAARKLAAENGLDASAVK- 134
Query: 83 GSAVGHTI--GHAVTGMFSGSDSKEAAPAAPAAPAPA 117
G+ G + + + + + + A AA A APA
Sbjct: 135 GTGKGGRVTKEDVLAALAAAAAAPAAPAAAAPAAAPA 171
Score = 28.6 bits (65), Expect = 1.2
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 9/77 (11%)
Query: 57 PAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAP 116
PAP A G+++++ A G VG +G G +G+ + AA AA AA AP
Sbjct: 49 PAPAA------GVLSEILAEEGDTV---TVGQVLGRIDEGAAAGAAAAAAAAAAAAAAAP 99
Query: 117 AYQQGSQSAAEPTGACA 133
A Q + +A + A +
Sbjct: 100 AQAQAAAAAEQSNDALS 116
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 33.7 bits (78), Expect = 0.030
Identities = 26/108 (24%), Positives = 33/108 (30%), Gaps = 27/108 (25%)
Query: 21 GRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
G + +P + + A+ A AP PA AP P PA A A A
Sbjct: 39 GSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAP--------AAPPKPAAAA 90
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEP 128
A +A AAP A AA A + P
Sbjct: 91 AAAAA-------------------PAAPPAAAAAAAPAAAAVEDEVTP 119
Score = 29.9 bits (68), Expect = 0.51
Identities = 16/72 (22%), Positives = 26/72 (36%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
+P+ ++ + +P ++ + +PAP PA P A A AAP
Sbjct: 43 APTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAAAAAAAAPAAPPAA 102
Query: 67 PGLMAQMAATAG 78
A AA
Sbjct: 103 AAAAAPAAAAVE 114
Score = 28.3 bits (64), Expect = 2.0
Identities = 21/99 (21%), Positives = 23/99 (23%), Gaps = 32/99 (32%)
Query: 35 SPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAV 94
P PT A A A A AA A A
Sbjct: 37 GPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAA------PAPA----------------- 73
Query: 95 TGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACA 133
AA A A P PA + +A A A
Sbjct: 74 ---------PPAAAAPAAPPKPAAAAAAAAAPAAPPAAA 103
>gnl|CDD|114268 pfam05537, DUF759, Borrelia burgdorferi protein of unknown function
(DUF759). This family consists of several
uncharacterized proteins from the Lyme disease
spirochete Borrelia burgdorferi.
Length = 439
Score = 33.5 bits (76), Expect = 0.032
Identities = 17/41 (41%), Positives = 26/41 (63%), Gaps = 7/41 (17%)
Query: 60 MAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSG 100
M A QG GL+A+ +AIGSA+G+ IG+A++ + G
Sbjct: 125 MLAASQGKGLVAK-------IAIGSALGNIIGNAMSKVGGG 158
>gnl|CDD|148383 pfam06747, CHCH, CHCH domain. we have identified a conserved motif
in the LOC118487 protein that we have called the CHCH
motif. Alignment of this protein with related members
showed the presence of three subgroups of proteins,
which are called the S (Small), N (N-terminal extended)
and C (C-terminal extended) subgroups. All three
sub-groups of proteins have in common that they contain
a predicted conserved [coiled coil 1]-[helix 1]-[coiled
coil 2]-[helix 2] domain (CHCH domain). Within each
helix of the CHCH domain, there are two cysteines
present in a C-X9-C motif. The N-group contains an
additional double helix domain, and each helix contains
the C-X9-C motif. This family contains a number of
characterized proteins: Cox19 protein - a nuclear gene
of Saccharomyces cerevisiae, codes for an 11-kDa protein
(Cox19p) required for expression of cytochrome oxidase.
Because cox19 mutants are able to synthesise the
mitochondrial and nuclear gene products of cytochrome
oxidase, Cox19p probably functions post-translationally
during assembly of the enzyme. Cox19p is present in the
cytoplasm and mitochondria, where it exists as a soluble
intermembrane protein. This dual location is similar to
what was previously reported for Cox17p, a low molecular
weight copper protein thought to be required for
maturation of the CuA centre of subunit 2 of cytochrome
oxidase. Cox19p have four conserved potential metal
ligands, these are three cysteines and one histidine.
Mrp10 - belongs to the class of yeast mitochondrial
ribosomal proteins that are essential for translation.
Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa
(NDUFA8) subunit. The CHCH domain was previously called
DUF657.
Length = 35
Score = 30.3 bits (69), Expect = 0.046
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 132 CAWEIKQFLQCANTQSD 148
C E K FL+C SD
Sbjct: 1 CGEEFKAFLKCLKENSD 17
>gnl|CDD|165527 PHA03269, PHA03269, envelope glycoprotein C; Provisional.
Length = 566
Score = 32.8 bits (74), Expect = 0.059
Identities = 31/118 (26%), Positives = 40/118 (33%), Gaps = 12/118 (10%)
Query: 6 RSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPA-------TPAPVQAQPTMPA 58
+ P P + H+ R P+ + P A PTPA PAP QA P
Sbjct: 38 QKPDPAPAPHQAASRAPDPAVAPTSAASRKPDLAQAPTPAASEKFDPAPAPHQAASRAPD 97
Query: 59 PMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAP 116
P APQ +A A SA A G + S + A +P P
Sbjct: 98 PAVAPQ-----LAAAPKPDAAEAFTSAAQAHEAPADAGTSAASKKPDPAAHTQHSPPP 150
Score = 30.9 bits (69), Expect = 0.25
Identities = 33/127 (25%), Positives = 47/127 (37%), Gaps = 11/127 (8%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTM-PAPMAAPQQ 65
+ P+ H + P P H AS AP P P + A + P P A+ +
Sbjct: 24 TNIPIPELHTSAAT-QKPDPAPAPHQAASRAPDPAVAPTSAASRKPDLAQAPTPAASEKF 82
Query: 66 GPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAA-PAPAYQQGSQS 124
P AA+ A AV + A D+ EA +A A APA S +
Sbjct: 83 DPAPAPHQAASR---APDPAVAPQLAAAPK-----PDAAEAFTSAAQAHEAPADAGTSAA 134
Query: 125 AAEPTGA 131
+ +P A
Sbjct: 135 SKKPDPA 141
>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1,
2, 3, 4 family. These eukaryotic proteins recognize the
poly-A of mRNA and consists of four tandem RNA
recognition domains at the N-terminus (rrm: pfam00076)
followed by a PABP-specific domain (pfam00658) at the
C-terminus. The protein is involved in the transport of
mRNA's from the nucleus to the cytoplasm. There are four
paralogs in Homo sapiens which are expressed in testis
(GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ),
broadly expressed (SP:P11940_PABP1) and of unknown
tissue range (SP:Q15097_PABP2).
Length = 562
Score = 32.5 bits (74), Expect = 0.070
Identities = 17/76 (22%), Positives = 25/76 (32%), Gaps = 2/76 (2%)
Query: 1 MVRRGRSPSPVSSFH-KMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAP 59
+R+ SP+ + G+ P G P + PTP P +P AP
Sbjct: 381 RMRQLPMGSPMGGAMGQPPYYGQGPQQQFNGQPLGWPRMSMMPTPMGPGG-PLRPNGLAP 439
Query: 60 MAAPQQGPGLMAQMAA 75
M A + A
Sbjct: 440 MNAVRAPSRNAQNAAQ 455
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 32.5 bits (74), Expect = 0.078
Identities = 26/131 (19%), Positives = 37/131 (28%), Gaps = 4/131 (3%)
Query: 6 RSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQP-TMPAPMAAPQ 64
R+ +P ++ R + A A + AQP +AP
Sbjct: 422 RAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASAPA 481
Query: 65 QG--PGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGS 122
P + A A + + A AAP AP A P +
Sbjct: 482 SDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPAAAAPPAPEARPPTPAAAA 541
Query: 123 QSAAEPTGACA 133
AA GA A
Sbjct: 542 -PAARAGGAAA 551
Score = 31.0 bits (70), Expect = 0.20
Identities = 22/102 (21%), Positives = 28/102 (27%), Gaps = 3/102 (2%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIG 91
+ A PAP R A A T A P A AAT +
Sbjct: 377 AGAVPAPGARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATA 436
Query: 92 HAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACA 133
+D PA A A A + + A+P
Sbjct: 437 DRGD---DAADGDAPVPAKANARASADSRCDERDAQPPADSG 475
Score = 28.3 bits (63), Expect = 1.8
Identities = 18/111 (16%), Positives = 25/111 (22%), Gaps = 5/111 (4%)
Query: 21 GRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
G + + + A AP A AP P
Sbjct: 384 GARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPA-----PPATADR 438
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
+A G A + +DS+ A S A P A
Sbjct: 439 GDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAPPDAA 489
Score = 27.1 bits (60), Expect = 5.0
Identities = 26/108 (24%), Positives = 32/108 (29%), Gaps = 1/108 (0%)
Query: 10 PVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGL 69
P S +P + + + P R A P A P
Sbjct: 480 PASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPAAAAPPAPEARPPTPA- 538
Query: 70 MAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPA 117
A AA AGG A V G V+ + A PAA A AP
Sbjct: 539 AAAPAARAGGAAAALDVLRNAGMRVSSDRGARAAAAAKPAAAPAAAPK 586
>gnl|CDD|225950 COG3416, COG3416, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 233
Score = 31.8 bits (72), Expect = 0.092
Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 4/72 (5%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHA 93
A P P P+ + T P+P AA + + TA GVA G + + +
Sbjct: 103 APPPKEPAAPPSWRSSPAGPTTQPSPAAANTRSSSFLGGALQTAAGVAGGMLLANGL--- 159
Query: 94 VTGMFSGSDSKE 105
GMF S+E
Sbjct: 160 -EGMFRHHKSEE 170
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 31.9 bits (72), Expect = 0.11
Identities = 30/116 (25%), Positives = 46/116 (39%), Gaps = 8/116 (6%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGL--MAQMAATAGGVA 81
P +RA A P PA A P AP+++ GP + + + A GV
Sbjct: 223 SEPAPDPAARAPHAAPDPPAPAPAPAKTAAPAAAAPVSSGDSGPYVTPLVRKLAKDKGVD 282
Query: 82 IGSAVGHTIGHAV------TGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
+ + G +G + + +++ AA A AA APA + AEP A
Sbjct: 283 LSTVKGTGVGGRIRKQDVLAAAKAAEEARAAAAAPAAAAAPAAPAAAAKPAEPDTA 338
Score = 30.4 bits (68), Expect = 0.31
Identities = 29/127 (22%), Positives = 45/127 (35%), Gaps = 18/127 (14%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQA-QPTMPAPMAAPQQGPGLMAQMAATAG--- 78
+ + + P P PA AP A P PAP A P A +++
Sbjct: 208 AEPAEEEAPAPSEAGSEPAPDPAARAPHAAPDPPAPAPAPAKTAAPAAAAPVSSGDSGPY 267
Query: 79 ------------GVAIGSAVGHTIGHAV--TGMFSGSDSKEAAPAAPAAPAPAYQQGSQS 124
GV + + G +G + + + + + E A AA AAPA A + +
Sbjct: 268 VTPLVRKLAKDKGVDLSTVKGTGVGGRIRKQDVLAAAKAAEEARAAAAAPAAAAAPAAPA 327
Query: 125 AAEPTGA 131
AA
Sbjct: 328 AAAKPAE 334
Score = 26.5 bits (58), Expect = 6.8
Identities = 16/43 (37%), Positives = 16/43 (37%), Gaps = 5/43 (11%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPT----MPAPMAAPQQGPG 68
G A AP P P AP PT PAP A G G
Sbjct: 83 GSEPAPAAPEPEAAPEPEAP-APAPTPAAEAPAPAAPQAGGSG 124
>gnl|CDD|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 484
Score = 31.9 bits (73), Expect = 0.11
Identities = 27/110 (24%), Positives = 37/110 (33%), Gaps = 8/110 (7%)
Query: 23 SPSPVSRGHSRASPAPAPRPT--PATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGV 80
P+ + ++ PA AP PA PA A + Q L+A+ AA A
Sbjct: 53 PPAAAAPAAAQPPPAAAPAAVSRPAAPAAEPAPWLVEHAKRLTAQREQLVARAAAPAAPE 112
Query: 81 AIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTG 130
A A A + A AA AAP P + +A
Sbjct: 113 AQAPAAPAERAAAENAA------RRLARAAAAAPRPRVPADAAAAVADAV 156
>gnl|CDD|233273 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This
model describes the bacterial oxaloacetate decarboxylase
alpha subunit and its equivalents in archaea. The
oxaloacetate decarboxylase Na+ pump is the paradigm of
the family of Na+ transport decarboxylases that present
in bacteria and archaea. It a multi subunit enzyme
consisting of a peripheral alpha-subunit and integral
membrane subunits beta and gamma. The energy released by
the decarboxylation reaction of oxaloacetate is coupled
to Na+ ion pumping across the membrane [Transport and
binding proteins, Cations and iron carrying compounds,
Energy metabolism, Other].
Length = 582
Score = 31.3 bits (71), Expect = 0.17
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 8/61 (13%)
Query: 28 SRGHSRASPA-PAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGG-VAIGSA 85
S+ + + PA A A + AP+A G + ++ + G VA G
Sbjct: 491 GGDVSQITASAPANTSGGTVAAKAGAGTPVTAPIA------GSIVKVKVSEGQTVAEGEV 544
Query: 86 V 86
+
Sbjct: 545 L 545
>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau;
Validated.
Length = 598
Score = 31.4 bits (72), Expect = 0.17
Identities = 13/79 (16%), Positives = 17/79 (21%), Gaps = 1/79 (1%)
Query: 16 KMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAA 75
+ G A APA P A A PA A A
Sbjct: 389 EGPPSPGGGGGGPPGGGGAPGAPAAAAAPGAAAAAPAAG-GPAAALAAVPDAAAAAAAPP 447
Query: 76 TAGGVAIGSAVGHTIGHAV 94
+ ++ V
Sbjct: 448 APAAAPQPAVRLNSFEDIV 466
Score = 26.4 bits (59), Expect = 7.4
Identities = 6/51 (11%), Positives = 11/51 (21%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMP 57
+P ++ + A P A QP +
Sbjct: 408 PGAPAAAAAPGAAAAAPAAGGPAAALAAVPDAAAAAAAPPAPAAAPQPAVR 458
>gnl|CDD|237000 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 30.9 bits (71), Expect = 0.19
Identities = 19/53 (35%), Positives = 20/53 (37%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAV 86
A+PA A P A PA A PAP AA A AA AV
Sbjct: 197 AAPAAAAAPAAAAPAAAAAAAPAPAPAAAAAPAAAAPAAAAAPGKAPHASPAV 249
Score = 30.6 bits (70), Expect = 0.31
Identities = 14/39 (35%), Positives = 16/39 (41%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPG 68
G + A+ APA PA A P AP AA G
Sbjct: 79 GAAAAAAAPAAAAAPAAAAAAAPAPAAAAPAAAAAAAGG 117
Score = 30.2 bits (69), Expect = 0.35
Identities = 20/48 (41%), Positives = 21/48 (43%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
A+ APA PA AP A PAP A P A AA A G A
Sbjct: 195 AAAAPAAAAAPAAAAPAAAAAAAPAPAPAAAAAPAAAAPAAAAAPGKA 242
Score = 26.3 bits (59), Expect = 8.5
Identities = 13/55 (23%), Positives = 15/55 (27%), Gaps = 4/55 (7%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGS 84
+ A+ A PA A P A A P AA G S
Sbjct: 196 AAAPAAAAAPAAAAPAAAAAAAPAPAPAAAAAPAAAAP----AAAAAPGKAPHAS 246
>gnl|CDD|235540 PRK05641, PRK05641, putative acetyl-CoA carboxylase biotin
carboxyl carrier protein subunit; Validated.
Length = 153
Score = 30.2 bits (68), Expect = 0.23
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 34 ASPAPAPRP-TPATPAPVQAQPTMPAPMAA 62
+PAPAP P P+ P PV PAP +A
Sbjct: 53 PTPAPAPAPAVPSAPTPVAPAAPAPAPASA 82
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 30.5 bits (69), Expect = 0.29
Identities = 13/88 (14%), Positives = 19/88 (21%), Gaps = 5/88 (5%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRA-----SPAPAPRPTPATPAPVQAQPTMPAP 59
+ P + +G + A + P P P P P+Q
Sbjct: 193 QQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLS 252
Query: 60 MAAPQQGPGLMAQMAATAGGVAIGSAVG 87
P P Q A
Sbjct: 253 QQMPPPPPQPPQQQQQPPQPQAQPPPQN 280
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 30.7 bits (69), Expect = 0.30
Identities = 23/94 (24%), Positives = 30/94 (31%), Gaps = 6/94 (6%)
Query: 22 RSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
R P P A PA P P A P P Q P + P +A+ GV
Sbjct: 404 RHPGPAKPEAPGARPAELPSPASA-PTPEQQPPVARSAPLPPSPQASAPRNVASGKPGVD 462
Query: 82 IGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPA 115
+GS G K+ A+ + A
Sbjct: 463 LGSWQG-----KFMNFTRNGSRKQPVQASSSDAA 491
>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional.
Length = 333
Score = 30.4 bits (69), Expect = 0.33
Identities = 13/67 (19%), Positives = 19/67 (28%), Gaps = 3/67 (4%)
Query: 2 VRRGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPA--TPAPVQAQPTMPAP 59
V R + H+ R ++ A P + P P +P PAP
Sbjct: 68 VHRVNHAPANAQEHEAARPSPQHQYQPP-YASAQPRQPVQQPPEAQVPPQHAPRPAQPAP 126
Query: 60 MAAPQQG 66
Q
Sbjct: 127 QPVQQPA 133
Score = 29.2 bits (66), Expect = 0.76
Identities = 15/52 (28%), Positives = 19/52 (36%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAA 75
P + APAP+P + P P Q P+AAPQ P
Sbjct: 138 PEQPLQQPVSPQVAPAPQPVHSAPQPAQQAFQPAEPVAAPQPEPVAEPAPVM 189
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 30.3 bits (69), Expect = 0.35
Identities = 23/102 (22%), Positives = 31/102 (30%), Gaps = 2/102 (1%)
Query: 29 RGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMA--ATAGGVAIGSAV 86
G + A+ A A A A A G+ A + A AG A S +
Sbjct: 297 GGGAAAAGGAAAAARGGAAAAGGASSAYSAGAAGGSGAAGVAAGLGGVARAGASAAASPL 356
Query: 87 GHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEP 128
A M S + + A A A +AA P
Sbjct: 357 RRAASRAAESMKSSFRAGARSTGGGAGGAAAAAAAGAAAAGP 398
Score = 30.3 bits (69), Expect = 0.40
Identities = 18/74 (24%), Positives = 25/74 (33%), Gaps = 2/74 (2%)
Query: 62 APQQGPGLMAQMAATAGGVAI--GSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQ 119
APQ G G AGG A+ + G G + + AA + AY
Sbjct: 266 APQLGAGAAVGTGLAAGGAAVAAAAGAGLAAGGGAAAAGGAAAAARGGAAAAGGASSAYS 325
Query: 120 QGSQSAAEPTGACA 133
G+ + G A
Sbjct: 326 AGAAGGSGAAGVAA 339
>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 584
Score = 30.2 bits (68), Expect = 0.36
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 26 PVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPG 68
P + H+ +P AP P+ A P P P P+ AP G
Sbjct: 388 PANLLHN--APQAAPAPSAAAPEPKHQPAPEPRPVLAPTPASG 428
Score = 26.4 bits (58), Expect = 7.1
Identities = 11/44 (25%), Positives = 13/44 (29%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAA 75
+ AP P P+ AP P P P AA
Sbjct: 390 NLLHNAPQAAPAPSAAAPEPKHQPAPEPRPVLAPTPASGEPNAA 433
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 29.8 bits (68), Expect = 0.37
Identities = 25/81 (30%), Positives = 29/81 (35%), Gaps = 17/81 (20%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIG 91
SRA+ AP A P AP AA AA A A +A G
Sbjct: 33 SRAAAAPV----APVAQQAAAAPVAAAPAAAAA---------AAAAPAAAPAAAAAEAEG 79
Query: 92 HAVT----GMFSGSDSKEAAP 108
H VT G F + S +A P
Sbjct: 80 HVVTSPMVGTFYRAPSPDAPP 100
>gnl|CDD|219419 pfam07462, MSP1_C, Merozoite surface protein 1 (MSP1) C-terminus.
This family represents the C-terminal region of
merozoite surface protein 1 (MSP1) which are found in a
number of Plasmodium species. MSP-1 is a 200-kDa protein
expressed on the surface of the P. vivax merozoite.
MSP-1 of Plasmodium species is synthesised as a
high-molecular-weight precursor and then processed into
several fragments. At the time of red cell invasion by
the merozoite, only the 19-kDa C-terminal fragment
(MSP-119), which contains two epidermal growth
factor-like domains, remains on the surface. Antibodies
against MSP-119 inhibit merozoite entry into red cells,
and immunisation with MSP-119 protects monkeys from
challenging infections. Hence, MSP-119 is considered a
promising vaccine candidate.
Length = 574
Score = 30.3 bits (68), Expect = 0.42
Identities = 13/62 (20%), Positives = 20/62 (32%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGH 92
+ + A T TP A P+ + A G + T+G V A +
Sbjct: 260 KGTTQEAKVTTVVTPPQADAAPSPLSVRPAGSSGSASGSTQIPTSGSVLGPGAAATELQQ 319
Query: 93 AV 94
V
Sbjct: 320 VV 321
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 30.1 bits (68), Expect = 0.43
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 14 FHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQ 65
F++++ + +R +R A AP+ T P +A+ A P+Q
Sbjct: 546 FNRIITLKDTWGARAREAAREKRAAAPKKTAK-PRRSKAEARAEAAALNPEQ 596
>gnl|CDD|219580 pfam07793, DUF1631, Protein of unknown function (DUF1631). The
members of this family are sequences derived from a
group of hypothetical proteins expressed by certain
bacterial species. The region concerned is approximately
440 amino acid residues in length.
Length = 729
Score = 29.9 bits (68), Expect = 0.44
Identities = 11/74 (14%), Positives = 22/74 (29%), Gaps = 1/74 (1%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
+ + R+ PA A Q + A GL+AQ +++ A
Sbjct: 224 GTKATSAGPRSQAPPAASGPSTDDAA-SGQGGQESAEALFAALQGLLAQARSSSAAPAAP 282
Query: 84 SAVGHTIGHAVTGM 97
+ ++
Sbjct: 283 AGQAPGSAQPLSTR 296
Score = 26.9 bits (60), Expect = 4.8
Identities = 17/69 (24%), Positives = 24/69 (34%)
Query: 58 APMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPA 117
+ Q P A G + A+ G+ + + S AAPAAPA AP
Sbjct: 229 SAGPRSQAPPAASGPSTDDAASGQGGQESAEALFAALQGLLAQARSSSAAPAAPAGQAPG 288
Query: 118 YQQGSQSAA 126
Q +
Sbjct: 289 SAQPLSTRE 297
>gnl|CDD|233365 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
dihydrolipoamide succinyltransferase (E2 component).
This model describes the TCA cycle 2-oxoglutarate system
E2 component, dihydrolipoamide succinyltransferase. It
is closely related to the pyruvate dehydrogenase E2
component, dihydrolipoamide acetyltransferase. The seed
for this model includes mitochondrial and Gram-negative
bacterial forms. Mycobacterial candidates are highly
derived, differ in having and extra copy of the
lipoyl-binding domain at the N-terminus. They score
below the trusted cutoff, but above the noise cutoff and
above all examples of dihydrolipoamide acetyltransferase
[Energy metabolism, TCA cycle].
Length = 403
Score = 29.7 bits (67), Expect = 0.52
Identities = 20/85 (23%), Positives = 30/85 (35%), Gaps = 5/85 (5%)
Query: 35 SPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPG--LMAQMAATAGGVAIGSAVGHTIGH 92
+ A P + A AP AA + ++A G+ + + G +
Sbjct: 80 ATAAPPAKSGEEKEETPAASAAAAPTAAANRPSLSPAARRLAKEH-GIDLSAVPGTGVTG 138
Query: 93 AVTGMFSGSDSKEAAPAAPAAPAPA 117
VT K APA+ PAPA
Sbjct: 139 RVTK--EDIIKKTEAPASAQQPAPA 161
Score = 28.5 bits (64), Expect = 1.5
Identities = 23/98 (23%), Positives = 32/98 (32%), Gaps = 12/98 (12%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHA 93
A PA + A A P P ++A G + + + G +
Sbjct: 83 APPAKSG-EEKEETPAASAAAAPTAAANRPSLSPA-ARRLAKEHG-IDLSAVPGTGVTGR 139
Query: 94 VTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
VT KE APA A QQ + +AA A
Sbjct: 140 VT--------KEDIIKKTEAPASA-QQPAPAAAAKAPA 168
>gnl|CDD|235665 PRK05996, motB, flagellar motor protein MotB; Validated.
Length = 423
Score = 29.7 bits (67), Expect = 0.53
Identities = 22/102 (21%), Positives = 29/102 (28%), Gaps = 14/102 (13%)
Query: 25 SPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGS 84
V+ P A + A T+P PQ P + AAT + +
Sbjct: 190 VEVTTAGDLLPPGQAREQAQGAKSATAAPATVPQAAPLPQAQP----KKAATEEELIADA 245
Query: 85 AVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAA 126
T G + AA AA P P QQ
Sbjct: 246 KKAAT----------GEPAANAAKAAKPEPMPDDQQKEAEQL 277
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 29.8 bits (67), Expect = 0.55
Identities = 10/57 (17%), Positives = 15/57 (26%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
+ +P R + + P P P A P P +AP
Sbjct: 373 AAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPRPVAPPVPHTPESAP 429
Score = 29.0 bits (65), Expect = 0.96
Identities = 20/95 (21%), Positives = 30/95 (31%), Gaps = 12/95 (12%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAI 82
P+ + R +PAP+ RP A A + + P+ P + + A
Sbjct: 370 KPTAAAPSPVRPTPAPSTRPKAAAAANIPPKE----PVRETATPPPVPPRPVAP------ 419
Query: 83 GSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPA 117
V HT A + E P AP
Sbjct: 420 --PVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKE 452
Score = 26.3 bits (58), Expect = 7.3
Identities = 11/62 (17%), Positives = 16/62 (25%), Gaps = 4/62 (6%)
Query: 18 VRRGRSPSPVSRGHSRASPAPAPRP----TPATPAPVQAQPTMPAPMAAPQQGPGLMAQM 73
R + P A P P PV +P P ++ L+A
Sbjct: 402 PVRETATPPPVPPRPVAPPVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKEEEKALIADG 461
Query: 74 AA 75
Sbjct: 462 DV 463
>gnl|CDD|235658 PRK05972, ligD, ATP-dependent DNA ligase; Reviewed.
Length = 860
Score = 29.9 bits (68), Expect = 0.57
Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 19 RRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
+GR+P P A A A R A A + +P APQ
Sbjct: 193 GKGRAPKPFMTPKGNAGLAAAARAAAAAAAKKAKKKALPD-FLAPQ 237
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 29.5 bits (66), Expect = 0.62
Identities = 13/35 (37%), Positives = 14/35 (40%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPG 68
A P+PA P P PA A T A AA
Sbjct: 20 APPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAE 54
Score = 28.7 bits (64), Expect = 1.4
Identities = 13/44 (29%), Positives = 16/44 (36%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
+ A+PAP P A PA A P AP A +
Sbjct: 15 EQPAPAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKK 58
Score = 26.4 bits (58), Expect = 8.2
Identities = 9/43 (20%), Positives = 13/43 (30%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
P+P + A P P T A A P++
Sbjct: 17 PAPAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKKD 59
>gnl|CDD|188060 TIGR00531, BCCP, acetyl-CoA carboxylase, biotin carboxyl carrier
protein. This model is designed to identify biotin
carboxyl carrier protein as a peptide of acetyl-CoA
carboxylase. Scoring below the trusted cutoff is a
related protein encoded in a region associated with
polyketide synthesis in the prokaryote Saccharopolyspora
hirsuta, and a reported chloroplast-encoded biotin
carboxyl carrier protein that may be highly derived from
the last common ancestral sequence. Scoring below the
noise cutoff are biotin carboxyl carrier domains of
other enzymes such as pyruvate carboxylase.The gene name
is accB or fabE [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 156
Score = 29.0 bits (65), Expect = 0.65
Identities = 15/68 (22%), Positives = 20/68 (29%)
Query: 41 RPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSG 100
+ A Q P P P A A A GH + + G F
Sbjct: 34 KAAAAAKKSAVQQAAAPVPAQVPAAPSAQAPAPAVCAPAPAKADKKGHFVRSPMVGTFYR 93
Query: 101 SDSKEAAP 108
+ S +A P
Sbjct: 94 APSPDAKP 101
Score = 28.3 bits (63), Expect = 1.0
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAAT 76
A+P PA P + PAP A ++G + + M T
Sbjct: 48 AAPVPAQVPAAPSAQAPAPAVCAPAPAKADKKGHFVRSPMVGT 90
>gnl|CDD|236999 PRK11854, aceF, pyruvate dehydrogenase dihydrolipoyltransacetylase;
Validated.
Length = 633
Score = 29.2 bits (66), Expect = 0.79
Identities = 18/55 (32%), Positives = 19/55 (34%), Gaps = 8/55 (14%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGH 88
A+PA AP AP A AP AAP A A A A H
Sbjct: 283 AAPAAAPAK-QEAAAPAPAAAKAEAPAAAP-------AAKAEGKSEFAENDAYVH 329
>gnl|CDD|173954 cd08195, DHQS, Dehydroquinate synthase (DHQS) catalyzes the
conversion of DAHP to DHQ in shikimate pathway for
aromatic compounds synthesis. Dehydroquinate synthase
(DHQS) catalyzes the conversion of
3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to
dehydroquinate (DHQ) in the second step of the shikimate
pathway. This pathway, which involves seven sequential
enzymatic steps in the conversion of erythrose
4-phosphate and phosphoenolpyruvate into chorismate for
subsequent synthesis of aromatic compounds, is found in
bacteria, microbial eukaryotes, and plants, but not in
mammals. Therefore, enzymes of this pathway are
attractive targets for the development of non-toxic
antimicrobial compounds, herbicides and anti-parasitic
agents. The activity of DHQS requires nicotinamide
adenine dinucleotide (NAD) as cofactor. A single active
site in DHQS catalyzes five sequential reactions
involving alcohol oxidation, phosphate elimination,
carbonyl reduction, ring opening, and intramolecular
aldol condensation. The binding of substrates and
ligands induces domain conformational changes. In some
fungi and protozoa, this domain is fused with the other
four domains in shikimate pathway and forms a
penta-domain AROM protein, which catalyzes steps 2-6 in
the shikimate pathway.
Length = 345
Score = 28.9 bits (66), Expect = 1.0
Identities = 6/8 (75%), Positives = 7/8 (87%)
Query: 87 GHTIGHAV 94
GHT GHA+
Sbjct: 236 GHTFGHAI 243
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 29.1 bits (65), Expect = 1.0
Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 1/74 (1%)
Query: 2 VRRGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMA 61
VR G +P+ + ++ G + G A+ AP P P P P P A
Sbjct: 879 VRVGYAPTLAEALDQVFGPGTGRVATAPG-GDAASAPPPGAGPPAPPQAVPPPRTTQPPA 937
Query: 62 APQQGPGLMAQMAA 75
AP +GP + A
Sbjct: 938 APPRGPDVPPAAVA 951
>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106). This
family of proteins are found in large numbers in the
Trichomonas vaginalis proteome. The function of this
protein is unknown.
Length = 422
Score = 28.9 bits (64), Expect = 1.1
Identities = 18/41 (43%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 28 SRGHS-RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
S GH R +P P +PT PA QPT+ P PQQ P
Sbjct: 192 SHGHRHRHAPKPTQQPTVQNPAQ---QPTVQNPAQQPQQQP 229
Score = 26.9 bits (59), Expect = 5.3
Identities = 10/30 (33%), Positives = 12/30 (40%)
Query: 38 PAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
PA +PT PA Q P+ QQ
Sbjct: 212 PAQQPTVQNPAQQPQQQPQQQPVQPAQQPT 241
Score = 26.2 bits (57), Expect = 9.2
Identities = 9/46 (19%), Positives = 13/46 (28%)
Query: 22 RSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
+ P+ + PA +P P P QQ P
Sbjct: 205 QQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQQPP 250
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 28.9 bits (65), Expect = 1.1
Identities = 24/87 (27%), Positives = 31/87 (35%), Gaps = 19/87 (21%)
Query: 36 PAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVT 95
P P PTPA PA A A P PGL+++ A+
Sbjct: 535 PDVPPAPTPAEPAAPVVAAAPKAAAATPPAQPGLLSRFFG-----------------ALK 577
Query: 96 GMFSGSDSKEAA--PAAPAAPAPAYQQ 120
+FSG + + PA A P QQ
Sbjct: 578 ALFSGGEETKPQEQPAPKAEAKPERQQ 604
>gnl|CDD|236776 PRK10856, PRK10856, cytoskeletal protein RodZ; Provisional.
Length = 331
Score = 28.5 bits (64), Expect = 1.3
Identities = 15/79 (18%), Positives = 22/79 (27%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAI 82
+P + + APAP P A V A P AA
Sbjct: 183 DTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANVDTAATPAPAAPATPDGAAPLPTDQA 242
Query: 83 GSAVGHTIGHAVTGMFSGS 101
G + +A+ F+
Sbjct: 243 GVSTPAADPNALVMNFTAD 261
>gnl|CDD|223941 COG1009, NuoL, NADH:ubiquinone oxidoreductase subunit 5 (chain
L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy
production and conversion / Inorganic ion transport and
metabolism].
Length = 606
Score = 28.8 bits (65), Expect = 1.3
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 68 GLMAQMAATAGGVAIGSAVGHTIGHAV 94
G M +A G +A +A+ H + HA
Sbjct: 308 GYMF-VALGLGSLAYEAAIFHLVTHAF 333
>gnl|CDD|215932 pfam00465, Fe-ADH, Iron-containing alcohol dehydrogenase.
Length = 323
Score = 28.3 bits (64), Expect = 1.3
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 72 QMAATAGGVAIGSA---VGHTIGHAVTGMF 98
+A+T G+A +A H + HA+ G+F
Sbjct: 234 LLASTLAGLAFSNAGLGAAHALAHALGGLF 263
>gnl|CDD|223065 PHA03378, PHA03378, EBNA-3B; Provisional.
Length = 991
Score = 28.5 bits (63), Expect = 1.4
Identities = 14/68 (20%), Positives = 21/68 (30%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
GR+ P ++ + +P + A P P P P PAP P+
Sbjct: 732 GRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGAPTPQPPPQAPPAPQQRPR 791
Query: 65 QGPGLMAQ 72
P
Sbjct: 792 GAPTPQPP 799
Score = 28.5 bits (63), Expect = 1.6
Identities = 15/68 (22%), Positives = 22/68 (32%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
GR+ P ++ + +P + A P P P A P P P PQ
Sbjct: 722 GRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGAPTPQPPPQ 781
Query: 65 QGPGLMAQ 72
P +
Sbjct: 782 APPAPQQR 789
Score = 28.1 bits (62), Expect = 2.2
Identities = 34/122 (27%), Positives = 45/122 (36%), Gaps = 5/122 (4%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTP-ATPAPVQAQPTMPAPMAAP 63
GR+ P ++ + +P +R + A AP P+P P A PAP Q P P P
Sbjct: 742 GRARPPAAAPGRARPPAAAPGR-ARPPAAAPGAPTPQPPPQAPPAPQQRPRGAPTPQPPP 800
Query: 64 QQGPG---LMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQ 120
Q GP LM + A G G G S A A P P+
Sbjct: 801 QAGPTSMQLMPRAAPGQQGPTKQILRQLLTGGVKRGRPSLKKPAALERQAAAGPTPSPGS 860
Query: 121 GS 122
G+
Sbjct: 861 GT 862
>gnl|CDD|221459 pfam12200, DUF3597, Domain of unknown function (DUF3597). This
family of proteins is found in bacteria, eukaryotes and
viruses. Proteins in this family are typically between
126 and 281 amino acids in length. The function of this
domain is unknown. The structure of this domain has
been found to contain five helices with a long flexible
loop between helices one and two.
Length = 124
Score = 27.7 bits (62), Expect = 1.5
Identities = 16/48 (33%), Positives = 21/48 (43%)
Query: 31 HSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAG 78
+ A+PAPA P A A A P P AA ++ +AA G
Sbjct: 13 AAAAAPAPAAAPATAPAAAAAAAPAATPPAAASVDVAAVLDALAAKKG 60
>gnl|CDD|220749 pfam10428, SOG2, RAM signalling pathway protein. SOG2 proteins in
Saccharomyces cerevisiae are involved in cell separation
and cytokinesis.
Length = 419
Score = 28.2 bits (63), Expect = 1.6
Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 5/64 (7%)
Query: 2 VRRGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASP-----APAPRPTPATPAPVQAQPTM 56
R +P+ + S + P P S G SR+S + + ATP ++ +
Sbjct: 195 PRSLSNPTTLESPSNLQVTTDVPPPYSNGTSRSSTMSSSANLSIISSLATPRSGESFRST 254
Query: 57 PAPM 60
P
Sbjct: 255 PTSG 258
>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 28.3 bits (63), Expect = 1.8
Identities = 13/54 (24%), Positives = 19/54 (35%)
Query: 25 SPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAG 78
S R + PA A P A+ PA + + Q+ M + A G
Sbjct: 1325 SLAERLKKKGGRKPAAANKKAAKPPAAAKKRGPATVQSGQKLLTEMLKPAEAIG 1378
Score = 28.3 bits (63), Expect = 1.8
Identities = 24/113 (21%), Positives = 36/113 (31%), Gaps = 6/113 (5%)
Query: 11 VSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPT-MPAPMAA----PQQ 65
VS ++ ++G + + PA A + PAT Q T M P A P++
Sbjct: 1324 VSLAERLKKKGGRKPAAANKKAAKPPAAAKKRGPATVQSGQKLLTEMLKPAEAIGISPEK 1383
Query: 66 GPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPA-APAAPAPA 117
M ++ + SGS S E A P P
Sbjct: 1384 KVRKMRASPFNKKSGSVLGRAATNKETESSENVSGSSSSEKDEIDVSAKPRPQ 1436
>gnl|CDD|218621 pfam05518, Totivirus_coat, Totivirus coat protein.
Length = 753
Score = 28.2 bits (63), Expect = 1.8
Identities = 16/93 (17%), Positives = 21/93 (22%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHT 89
G P P T + P P A + P GG +
Sbjct: 658 GVPGPVPVGMPAHTARPSRVARGDPVRPTAHHAALRAPQAPRPGGPPGGGGGLPPPPDLP 717
Query: 90 IGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGS 122
S + AP P P G+
Sbjct: 718 AAAGPAPCGSSLIASPTAPPEPEPPGAEQADGA 750
>gnl|CDD|221173 pfam11702, DUF3295, Protein of unknown function (DUF3295). This
family is conserved in fungi but the function is not
known.
Length = 509
Score = 28.0 bits (62), Expect = 2.2
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 7 SPSPVSSFHKM----VRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPT 55
S + SS + V RG SPS +S + R++ P+P A A P
Sbjct: 145 SDTSTSSSGALPSTSVVRGFSPSHISSSY-RSTAQLNKAPSPTKSAEPTAAPQ 196
Score = 26.1 bits (57), Expect = 8.8
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 2 VRRGRSPSPVSSFHK-MVRRGRSPSPVSRGHSRASPAPAPRP 42
V RG SPS +SS ++ + ++PSP A+P P
Sbjct: 160 VVRGFSPSHISSSYRSTAQLNKAPSPTKSAEPTAAPQAKPEL 201
>gnl|CDD|227832 COG5545, COG5545, Predicted P-loop ATPase and inactivated
derivatives [General function prediction only].
Length = 517
Score = 28.0 bits (62), Expect = 2.2
Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 8/61 (13%)
Query: 1 MVRRGRSPSPV------SSFHKMVRRGRSPSPVSRGHSRASPAP--APRPTPATPAPVQA 52
M GR P+ + +K R S +R + AP AP+ TP T A +
Sbjct: 441 MKELGRDPTDGEPCVEDTWTNKRQRWPNFKSREARWVREQTAAPFGAPQETPPTEANEEG 500
Query: 53 Q 53
Q
Sbjct: 501 Q 501
>gnl|CDD|235899 PRK06975, PRK06975, bifunctional uroporphyrinogen-III
synthetase/uroporphyrin-III C-methyltransferase;
Reviewed.
Length = 656
Score = 27.8 bits (62), Expect = 2.4
Identities = 9/52 (17%), Positives = 13/52 (25%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG 83
+ PA P P P + L + A A+G
Sbjct: 289 KSVTSQPAAAAAAPAPPPNPPATPPEPPARRGRGSAALWFVVVVLACAAAVG 340
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 27.8 bits (62), Expect = 2.7
Identities = 24/107 (22%), Positives = 29/107 (27%), Gaps = 15/107 (14%)
Query: 34 ASPAPAPRPTPA---------TPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGS 84
A P A P P P Q P +P P + A G I +
Sbjct: 55 APPPVAQLPQPLPQPPPTQALQALPAGDQQQHNTPTGSPAANPPATFALPAGPAGPTIQT 114
Query: 85 AVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
G V M PA PA Q+ Q + GA
Sbjct: 115 EPGQLYPVQVPVM------VTQNPANSPLDQPAQQRALQQLQQRYGA 155
>gnl|CDD|130609 TIGR01546, GAPDH-II_archae, glyceraldehyde-3-phosphate
dehydrogenase, type II. This model describes the type
II glyceraldehyde-3-phosphate dehydrogenases which are
limited to archaea. These enzymes catalyze the
interconversion of 1,3-diphosphoglycerate and
glyceraldehyde-3-phosphate, a central step in glycolysis
and gluconeogenesis. In archaea, either NAD or NADP may
be utilized as the cofactor. The class I GAPDH's from
bacteria and eukaryotes are covered by TIGR01534. All of
the members of the seed are characterized. See, for
instance. This model is very solid, there are no species
falling between trusted and noise at this time. The
closest relatives scoring in the noise are the class I
GAPDH's.
Length = 333
Score = 27.5 bits (61), Expect = 2.9
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 5/30 (16%)
Query: 17 MVRRGRSPSPVSRGHSRASPAPAPRPTPAT 46
MVRR P+ V +G P A P P T
Sbjct: 162 MVRRAADPNDVKKG-----PINAIVPDPVT 186
>gnl|CDD|216334 pfam01153, Glypican, Glypican.
Length = 559
Score = 27.7 bits (62), Expect = 2.9
Identities = 10/28 (35%), Positives = 10/28 (35%)
Query: 19 RRGRSPSPVSRGHSRASPAPAPRPTPAT 46
R RSP S P RPT A
Sbjct: 346 RSARSPEEASFKKRFRKYTPEERPTTAA 373
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 27.3 bits (61), Expect = 3.1
Identities = 11/41 (26%), Positives = 15/41 (36%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
+ +P + + P P P PAP P P A P
Sbjct: 147 AAAPTPEPPAASKPTPPAAAKPPEPAPAAKPPPTPVARADP 187
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 27.5 bits (61), Expect = 3.2
Identities = 12/62 (19%), Positives = 22/62 (35%), Gaps = 5/62 (8%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
G+ P+++ + R G PV+ + +PA +PT P P
Sbjct: 123 YGKQAGPITNPNVKRRTGVGLPPVA-----PAASPALKPTANGKRPSSKPPKSIMSPEVK 177
Query: 64 QQ 65
+
Sbjct: 178 VK 179
>gnl|CDD|223182 COG0104, PurA, Adenylosuccinate synthase [Nucleotide transport and
metabolism].
Length = 430
Score = 27.2 bits (61), Expect = 3.3
Identities = 14/23 (60%), Positives = 15/23 (65%)
Query: 76 TAGGVAIGSAVGHTIGHAVTGMF 98
TAGGVA GS VG T V G+F
Sbjct: 245 TAGGVATGSGVGPTKIDYVIGVF 267
>gnl|CDD|237082 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
Length = 400
Score = 27.5 bits (61), Expect = 3.4
Identities = 19/98 (19%), Positives = 22/98 (22%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHA 93
+ P P APV A + L A A
Sbjct: 225 GTEVPLLAPWQGDAAPVPPSEAARPKSADAETNAALKTPATAPKAAAKNAKAPEAQPVSG 284
Query: 94 VTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGA 131
A AA A PA + A P GA
Sbjct: 285 TAAAEPAPKEAAKAAAAAAKPALEDKPRPLGIARPGGA 322
>gnl|CDD|224496 COG1580, FliL, Flagellar basal body-associated protein [Cell
motility and secretion].
Length = 159
Score = 26.9 bits (60), Expect = 3.5
Identities = 10/50 (20%), Positives = 13/50 (26%), Gaps = 10/50 (20%)
Query: 69 LMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAY 118
L+ + A A S S+ EA A AY
Sbjct: 22 LIVLIVLLALAGAGYFFW----------FGSKSEDAEAESAQTPVEILAY 61
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 27.3 bits (61), Expect = 3.6
Identities = 23/115 (20%), Positives = 30/115 (26%), Gaps = 17/115 (14%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQ 64
P+ S PS S +SP+ + P + P P P
Sbjct: 176 DADPASASPSDPPSSSPGVPSFPSPPEDPSSPSDSSLPPAPSSFQSDTPPPSPESPTNPS 235
Query: 65 QGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQ 119
PG A V S +K P+A A PAP
Sbjct: 236 PPPGPAAPPPPPVQQV-----------------PPLSTAKPTPPSASATPAPIGG 273
>gnl|CDD|216648 pfam01690, PLRV_ORF5, Potato leaf roll virus readthrough protein.
This family consists mainly of the potato leaf roll
virus readthrough protein. This is generated via a
readthrough of open reading frame 3 a coat protein
allowing transcription of open reading frame 5 to give
an extended coat protein with a large c-terminal
addition or read through domain. The readthrough
protein is thought to play a role in the circulative
aphid transmission of potato leaf roll virus. Also in
the family is open reading frame 6 from beet western
yellows virus and potato leaf roll virus both
luteovirus and an unknown protein from cucurbit
aphid-borne yellows virus a closterovirus.
Length = 460
Score = 27.4 bits (61), Expect = 3.6
Identities = 11/24 (45%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 32 SRASPAPAPRPTPATPAPVQAQPT 55
P P P PTP PAP +PT
Sbjct: 3 GEPGPKPGPTPTPPPPAP-TPEPT 25
>gnl|CDD|113156 pfam04375, HemX, HemX. This family consists of several bacterial
HemX proteins. The hemX gene is not essential for haem
synthesis in B. subtilis. HemX is a polytopic membrane
protein which by an unknown mechanism down-regulates
the level of HemA.
Length = 372
Score = 27.2 bits (60), Expect = 3.6
Identities = 13/53 (24%), Positives = 18/53 (33%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAV 86
+ PA T T +PV P + A L+ + AGG G
Sbjct: 2 SVPAETASQTTVTSSPVAPGPAAKSGGATGLAALALLVALGLGAGGWYFGLQQ 54
>gnl|CDD|236126 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 486
Score = 27.3 bits (61), Expect = 3.7
Identities = 14/49 (28%), Positives = 20/49 (40%)
Query: 85 AVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTGACA 133
A A T + + EAA AA ++ + + S S AE G A
Sbjct: 422 AEAERRWEAHTAQVEKAAAAEAAAAAASSESSSSASSSSSEAEAGGTLA 470
>gnl|CDD|234565 PRK00002, aroB, 3-dehydroquinate synthase; Reviewed.
Length = 358
Score = 27.0 bits (61), Expect = 3.8
Identities = 6/8 (75%), Positives = 7/8 (87%)
Query: 87 GHTIGHAV 94
GHT GHA+
Sbjct: 243 GHTFGHAI 250
>gnl|CDD|223061 PHA03369, PHA03369, capsid maturational protease; Provisional.
Length = 663
Score = 27.3 bits (60), Expect = 4.0
Identities = 16/95 (16%), Positives = 26/95 (27%), Gaps = 10/95 (10%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAP---------MAAPQQGPGLMAQMAATAGGVAIG 83
A+ P + AP + + + T+ +A
Sbjct: 523 TAAANIEPNCSADAAAPATKRARPETKTELEAVVRFPYQIRNMESPAFVHSFTSTTLAAA 582
Query: 84 SAVGHTIGHAVTGMFSG-SDSKEAAPAAPAAPAPA 117
+ G A+ G A PA + PAPA
Sbjct: 583 AGQGSDTAEALAGAIETLLTQASAQPAGLSLPAPA 617
>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein;
Provisional.
Length = 172
Score = 26.8 bits (59), Expect = 4.4
Identities = 10/33 (30%), Positives = 12/33 (36%)
Query: 31 HSRASPAPAPRPTPATPAPVQAQPTMPAPMAAP 63
+ A A RP A + P PAP A
Sbjct: 129 NQSAPRQQAQRPQQAAQQQSRPAPQQPAPQPAA 161
Score = 25.7 bits (56), Expect = 9.8
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 20 RGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQ 65
R + +G + + APR P Q + PAP Q
Sbjct: 114 RPQGDDQGGQGGGNYNQS-APRQQAQRPQQAAQQQSRPAPQQPAPQ 158
>gnl|CDD|226830 COG4395, COG4395, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 281
Score = 27.1 bits (60), Expect = 4.4
Identities = 13/71 (18%), Positives = 21/71 (29%), Gaps = 9/71 (12%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHT 89
G ++ P+ + PA A AP A P G++ +A G G
Sbjct: 1 GTRSSTATPSTQTAPAAAAA--------APAARPSFFSGMLGGLAGGLLMGLSGMFFGGL 52
Query: 90 IGHAVTGMFSG 100
+
Sbjct: 53 FF-GIAAFLIF 62
>gnl|CDD|119350 cd02871, GH18_chitinase_D-like, GH18 domain of Chitinase D (ChiD).
ChiD, a chitinase found in Bacillus circulans,
hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine
in chitin and chitodextrins. The domain architecture of
ChiD includes a catalytic glycosyl hydrolase family 18
(GH18) domain, a chitin-binding domain, and a
fibronectin type III domain. The chitin-binding and
fibronectin type III domains are located either
N-terminal or C-terminal to the catalytic domain. This
family includes exochitinase Chi36 from Bacillus cereus.
Length = 312
Score = 26.9 bits (60), Expect = 4.4
Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 1/65 (1%)
Query: 46 TPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKE 105
T P+ P+ A + GL A +A GG S V + + G GS
Sbjct: 223 TGFPIAGND-RFPPLPADKVVIGLPASPSAAGGGYVSPSEVIKALDCLMKGTNCGSYYPA 281
Query: 106 AAPAA 110
+
Sbjct: 282 GGYPS 286
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 26.9 bits (59), Expect = 4.5
Identities = 24/121 (19%), Positives = 31/121 (25%), Gaps = 11/121 (9%)
Query: 10 PVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGL 69
PV + P P P P P P P P P PQ L
Sbjct: 400 PVEVISQPAMVEPEPEPEPEPEPEPEPEPEPEPEPE-----------PEPEPEPQPNQDL 448
Query: 70 MAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPT 129
M + + SAV + F ++ + S AEP
Sbjct: 449 MVFDPNHHELIGLESAVVQETVSVLEEDFIPVPEQKLVQVQAETQVKQIEPEPASTAEPI 508
Query: 130 G 130
G
Sbjct: 509 G 509
>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 767
Score = 27.1 bits (60), Expect = 4.6
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 34 ASPAPAPRPTP-ATPAPVQAQPTMPAPMAAPQQGPGLMAQMAA 75
A PAPAP P PAP A PA + AP L ++ +
Sbjct: 59 APPAPAPLPAALVAPAPAAASIAAPAAVPAPGAIGDLRGELQS 101
Score = 26.7 bits (59), Expect = 6.2
Identities = 15/45 (33%), Positives = 17/45 (37%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAG 78
A A A P PAP+ A PAP AA P + A
Sbjct: 50 AVAASAQAYAPPAPAPLPAALVAPAPAAASIAAPAAVPAPGAIGD 94
>gnl|CDD|233374 TIGR01357, aroB, 3-dehydroquinate synthase. This model represents
3-dehydroquinate synthase, the enzyme catalyzing the
second of seven steps in the shikimate pathway of
chorismate biosynthesis. Chorismate is the last common
intermediate in the biosynthesis of all three aromatic
amino acids [Amino acid biosynthesis, Aromatic amino
acid family].
Length = 344
Score = 26.8 bits (60), Expect = 4.7
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 87 GHTIGHAVTGMFS 99
GHTIGHA+
Sbjct: 233 GHTIGHAIEAEAG 245
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 27.0 bits (60), Expect = 5.0
Identities = 11/56 (19%), Positives = 16/56 (28%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAP 59
S S S R R PS S H+ + +P+ P+
Sbjct: 19 SSSSQSSPPSSTSPRPRRRKPSASSLLHTPSILPLPKLSSPSPPSVTLPPAATTQT 74
>gnl|CDD|225766 COG3225, GldG, ABC-type uncharacterized transport system involved
in gliding motility, auxiliary component [Cell motility
and secretion].
Length = 538
Score = 26.7 bits (59), Expect = 5.1
Identities = 11/65 (16%), Positives = 21/65 (32%), Gaps = 1/65 (1%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTM-PAPMAAP 63
+ P ++ + P+P + S + +PA + A + A MA
Sbjct: 393 NANLVPSGKPEELAAKIPGPAPSAFIASPENDQEGKSDRENSPAILVADSDLLSAYMANQ 452
Query: 64 QQGPG 68
Q
Sbjct: 453 SQQVV 457
>gnl|CDD|219355 pfam07267, Nucleo_P87, Nucleopolyhedrovirus capsid protein P87.
This family consists of several Nucleopolyhedrovirus
capsid protein P87 sequences. P87 is expressed late in
infection and concentrated in infected cell nuclei.
Length = 606
Score = 26.8 bits (59), Expect = 5.4
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 11 VSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPV-QAQPTMPAPMAAPQQ 65
V +F K V R ++ + R+ PA P P+ + + P+ P
Sbjct: 253 VRNFAKTVWRQKNTPAQTPMPERSWQTPAQTPARRISTPMTEEIKSWQTPLQTPAM 308
>gnl|CDD|236507 PRK09424, pntA, NAD(P) transhydrogenase subunit alpha; Provisional.
Length = 509
Score = 26.7 bits (60), Expect = 5.4
Identities = 10/43 (23%), Positives = 16/43 (37%)
Query: 44 PATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIGSAV 86
P P V A P A A ++ A +A+ +A+
Sbjct: 369 PPPPIQVSAAPAAAAAAPAAKEEEKKPASPWRKYALMALAAAL 411
>gnl|CDD|240324 PTZ00234, PTZ00234, variable surface protein Vir12; Provisional.
Length = 433
Score = 26.9 bits (59), Expect = 5.7
Identities = 17/94 (18%), Positives = 32/94 (34%), Gaps = 10/94 (10%)
Query: 37 APAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATAGGVAIG--SAVGHTIGHAV 94
+ +P+ P+ +P +P A + +P P + A G A ++V + V
Sbjct: 242 SSSPKTAPSKGSPGAQEPAKTAVVKSPGGIPSAGGKRAGAEGAGANKGLASVAPSQSREV 301
Query: 95 TGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEP 128
++ P AP + Q G
Sbjct: 302 LNG-----TQNPVPVAPLGSS---QAGVHMPHGS 327
>gnl|CDD|223414 COG0337, AroB, 3-dehydroquinate synthetase [Amino acid transport
and metabolism].
Length = 360
Score = 26.8 bits (60), Expect = 5.8
Identities = 6/8 (75%), Positives = 7/8 (87%)
Query: 87 GHTIGHAV 94
GHT GHA+
Sbjct: 244 GHTFGHAI 251
>gnl|CDD|225987 COG3456, COG3456, Predicted component of the type VI protein
secretion system, contains a FHA domain [Intracellular
trafficking, secretion, and vesicular transport;
Signal transduction mechanisms].
Length = 430
Score = 26.7 bits (59), Expect = 5.9
Identities = 19/111 (17%), Positives = 30/111 (27%), Gaps = 3/111 (2%)
Query: 5 GRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMP--APMAA 62
G S P+S+ + P P S + + AP PA+ + P A
Sbjct: 159 GFSADPLSA-LQSESLIAQPDPAGGAPSISRNSEAPLSDPASAGGIDTPFPDDLDVPPIA 217
Query: 63 PQQGPGLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAA 113
+ + AV + DS +A A
Sbjct: 218 ASPPGPQEGPTISASQPAQRDHAVLAPFLRGLGVSLPDLDSDDAEAFLEEA 268
>gnl|CDD|140267 PTZ00240, PTZ00240, 60S ribosomal protein P0; Provisional.
Length = 323
Score = 26.5 bits (58), Expect = 5.9
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 99 SGSDSKEAAPAAPAAPAPAYQQGSQSAAE 127
GS + EAA AAPAA + A ++ + + E
Sbjct: 286 GGSAAAEAAAAAPAAASAAAKEEEEESDE 314
>gnl|CDD|226338 COG3817, COG3817, Predicted membrane protein [Function unknown].
Length = 313
Score = 26.6 bits (59), Expect = 6.0
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 68 GLMAQMAATAGGVAIGSAVGHTIGHAVTGMFSGSDSKEAAPAA 110
++ QM A G V + VG I H + +DS+ A AA
Sbjct: 168 AILPQMLAALGAVFASAGVGDVIAH-LISEIIPADSRFIAVAA 209
>gnl|CDD|216685 pfam01761, DHQ_synthase, 3-dehydroquinate synthase. The
3-dehydroquinate synthase EC:4.6.1.3 domain is present
in isolation in various bacterial 3-dehydroquinate
synthases and also present as a domain in the
pentafunctional AROM polypeptide. 3-dehydroquinate (DHQ)
synthase catalyzes the formation of dehydroquinate (DHQ)
and orthophosphate from 3-deoxy-D-arabino heptulosonic 7
phosphate. This reaction is part of the shikimate
pathway which is involved in the biosynthesis of
aromatic amino acids.
Length = 259
Score = 26.3 bits (59), Expect = 6.4
Identities = 6/8 (75%), Positives = 7/8 (87%)
Query: 87 GHTIGHAV 94
GHT GHA+
Sbjct: 180 GHTFGHAI 187
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC protein.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 378
Score = 26.4 bits (58), Expect = 6.4
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAAT 76
A+P AP PTP+ PA + + A ++ P + A
Sbjct: 89 ATPTSAPTPTPSPPASPASGMSAAPASAVEEKSPSEESATATA 131
>gnl|CDD|236234 PRK08312, PRK08312, putative indolepyruvate oxidoreductase subunit
B; Reviewed.
Length = 510
Score = 26.5 bits (59), Expect = 6.4
Identities = 17/68 (25%), Positives = 23/68 (33%), Gaps = 5/68 (7%)
Query: 1 MVRRGRSPSPVSSFHKMVRRG-----RSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPT 55
+ G P F ++R S + G + A A P PA AP +P
Sbjct: 174 LAGSGALPFAREQFEAVIRASGKGVKASLRAFAAGFAAAQQGGAAPPPPAAAAPTAPRPR 233
Query: 56 MPAPMAAP 63
PA A
Sbjct: 234 PPALAARA 241
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 26.7 bits (59), Expect = 6.4
Identities = 9/37 (24%), Positives = 11/37 (29%)
Query: 26 PVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAA 62
+ PAP + PA P A AA
Sbjct: 7 AKEEPAKEEATPPAPAASAPAPAAAAPAPVAAAAPAA 43
>gnl|CDD|236768 PRK10819, PRK10819, transport protein TonB; Provisional.
Length = 246
Score = 26.2 bits (58), Expect = 6.4
Identities = 9/44 (20%), Positives = 13/44 (29%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
P + +P PA P A P+ + GP
Sbjct: 117 PKREVKPVEPRPASPFENTAPARPTSSTATAAASKPVTSVSSGP 160
>gnl|CDD|215605 PLN03153, PLN03153, hypothetical protein; Provisional.
Length = 537
Score = 26.4 bits (58), Expect = 6.6
Identities = 8/53 (15%), Positives = 16/53 (30%)
Query: 7 SPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAP 59
S + +H+ SP + P P P P + + + +
Sbjct: 50 SGTTARCWHRFKDWEGSPDTLLWNKRYHHPIVTPLPPPPSSPSLPSSLLLDHF 102
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 26.5 bits (58), Expect = 6.6
Identities = 28/109 (25%), Positives = 41/109 (37%), Gaps = 8/109 (7%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPV-QAQPTMPAPMAAPQQGPGLMAQMAATAGGVA 81
+ +PV + +P + A APV A + P AAP Q A A V
Sbjct: 1124 TQAPVIKSVVTQAPVVQVTISVAPAAPVLPAVVSPPVVSAAPAQS-VATAVAMAPVAEVP 1182
Query: 82 IGSAVGHTIGHAVTGMFSGSDSKEAAPAAPAAPAPAYQQGSQSAAEPTG 130
I V ++ + S ++ AAP A + Q + AE TG
Sbjct: 1183 IAVPVQQSVD------YMPSVAQAAAPQASVNDSAIQQVMMEVVAEKTG 1225
>gnl|CDD|222783 PHA00350, PHA00350, putative assembly protein.
Length = 399
Score = 26.4 bits (58), Expect = 6.8
Identities = 9/40 (22%), Positives = 12/40 (30%), Gaps = 3/40 (7%)
Query: 30 GHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGL 69
S +PA TP+ V P + P L
Sbjct: 252 SDSVKTPAEHQAQTPSGVPTVSGPAR---PAQTGKPAPVL 288
>gnl|CDD|185045 PRK15088, PRK15088, PTS system mannose-specific transporter
subunits IIAB; Provisional.
Length = 322
Score = 26.1 bits (58), Expect = 7.2
Identities = 6/34 (17%), Positives = 7/34 (20%)
Query: 33 RASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQG 66
+A A PA P P
Sbjct: 127 KALKAKPVEKAAPAPAAAAPAPAAATPAKPMGPN 160
>gnl|CDD|111576 pfam02691, VacA, Vacuolating cyotoxin. This family consists of
Vacuolating cyotoxin proteins form Proteobacteria. These
proteins are an important virulence determinate in H.
pylori and induce cytoplasmic vacuolation in a variety
of mammalian cell lines.
Length = 1002
Score = 26.6 bits (58), Expect = 7.4
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 73 MAATAGGVAIGSAVGHTIGHAVTGMFS-GSDSKEAAPAAPAAP 114
+ A GG+A G+AVG V+G+ G E A AP P
Sbjct: 8 IPAIVGGIATGAAVG-----TVSGLLGWGLKQAEEANKAPDKP 45
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 26.4 bits (58), Expect = 7.4
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 1/63 (1%)
Query: 6 RSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQ 65
+ P P S R S +R + P P+ RP A PAP + + + Q
Sbjct: 254 KKPDPSPSMASPETRESSKRTETRPRTSLRP-PSARPASARPAPPRVKRKEIVTVLQDAQ 312
Query: 66 GPG 68
G G
Sbjct: 313 GVG 315
>gnl|CDD|217469 pfam03276, Gag_spuma, Spumavirus gag protein.
Length = 582
Score = 26.4 bits (58), Expect = 8.1
Identities = 16/43 (37%), Positives = 19/43 (44%)
Query: 23 SPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQ 65
S +P G S A P+ P PA P P Q P P+ PQ
Sbjct: 220 SFNPFLPGPSPAQPSAPPASIPAPPIPPVIQYVAPPPVPPPQP 262
>gnl|CDD|233366 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model describes a subset of pyruvate dehydrogenase
complex dihydrolipoamide acetyltransferase specifically
close by both phylogenetic and per cent identity (UPGMA)
trees. Members of this set include two or three copies
of the lipoyl-binding domain. E. coli AceF is a member
of this model, while mitochondrial and some other
bacterial forms belong to a separate model [Energy
metabolism, Pyruvate dehydrogenase].
Length = 546
Score = 26.4 bits (58), Expect = 8.3
Identities = 17/44 (38%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 24 PSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGP 67
P+P S + SPA A PA +AQ PAP A Q P
Sbjct: 200 PAPASAQPAAQSPAATQPEPAAAPAAAKAQA--PAPQQAGTQNP 241
>gnl|CDD|237592 PRK14040, PRK14040, oxaloacetate decarboxylase; Provisional.
Length = 593
Score = 26.0 bits (58), Expect = 8.4
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 34 ASPAPAPRPTPATPAPVQAQPTMPAPMA 61
A+PA AP A A + AP+A
Sbjct: 505 AAPAAAPAAAAAAAPAAAAGEPVTAPLA 532
>gnl|CDD|173956 cd08197, DOIS, 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes
carbocycle formation from D-glucose-6-phosphate to
2-deoxy-scyllo-inosose through a multistep reaction in
the biosynthesis of aminoglycoside antibiotics.
2-deoxy-scyllo-inosose synthase (DOIS) catalyzes
carbocycle formation from D-glucose-6-phosphate to
2-deoxy-scyllo-inosose through a multistep reaction in
the biosynthesis of aminoglycoside antibiotics.
2-Deoxystreptamine (DOS)-containing aminoglycoside
antibiotics includes neomycin, kanamycin, gentamicin,
and ribostamycin. They are important antibacterial
agents. DOIS is a homologue of the dehydroquinate
synthase which catalyzes the cyclization of
3-deoxy-D-arabino-heputulosonate-7-phosphate to
dehydroquinate (DHQ) in the shikimate pathway.
Length = 355
Score = 26.1 bits (58), Expect = 8.6
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 87 GHTIGHAV 94
GHT+GHAV
Sbjct: 235 GHTVGHAV 242
>gnl|CDD|215213 PLN02374, PLN02374, pyruvate dehydrogenase (acetyl-transferring).
Length = 433
Score = 26.1 bits (57), Expect = 9.2
Identities = 10/60 (16%), Positives = 17/60 (28%), Gaps = 2/60 (3%)
Query: 1 MVRRGRSPSPVSSFHKM--VRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPA 58
R SP+ K G + S A+ A A V+ + + +
Sbjct: 18 SSRDDAPSSPLRGALKRSSAFTGSTSKLSSLRGLNAANGRRRSTVVAVSAVVKEKNSKAS 77
>gnl|CDD|236851 PRK11114, PRK11114, cellulose synthase regulator protein;
Provisional.
Length = 756
Score = 26.0 bits (58), Expect = 9.4
Identities = 12/63 (19%), Positives = 17/63 (26%), Gaps = 1/63 (1%)
Query: 17 MVRRGRSPSPVSRGHSRASPAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGL-MAQMAA 75
+ G S P + + P A AAP + L AQ+
Sbjct: 10 ALALGMSAFPAFATAAAPATQPLANAAGQVMPAAPAAAAPVVAQAAPSRDVTLTFAQLGP 69
Query: 76 TAG 78
G
Sbjct: 70 APG 72
>gnl|CDD|109943 pfam00906, Hepatitis_core, Hepatitis core antigen. The core
antigen of hepatitis viruses possesses a carboxyl
terminus rich in arginine. On this basis it was
predicted that the core antigen would bind DNA. There is
some experimental evidence to support this.
Length = 182
Score = 25.5 bits (56), Expect = 9.5
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 10/35 (28%)
Query: 4 RGRSPSPVSSFHKMVRRGRSPSPVSRGHSRASPAP 38
R R+PSP RR RS SP R S+ SP+
Sbjct: 156 RRRTPSP--------RRRRSQSP-RRRRSQ-SPSS 180
>gnl|CDD|237529 PRK13841, PRK13841, conjugal transfer protein TrbL; Provisional.
Length = 391
Score = 26.0 bits (57), Expect = 9.8
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 58 APMAAPQQGPGLMAQMAATAGGVAIGSAV--GHTIGHAVTGMFSGSDSKEAAPAAPAAPA 115
A +AA G G A AA AGG ++ A G G G +GS +KE A +P A A
Sbjct: 301 AFLAAGAAGAGFAAASAARAGGSSLAGAALRGMGAGIGSAGSAAGSAAKEKAIGSPGAYA 360
>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein. Members of this
protein family belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria). Proteins in this
family average over 1400 amino acids in length
[Hypothetical proteins, Conserved].
Length = 1353
Score = 25.9 bits (57), Expect = 9.9
Identities = 21/84 (25%), Positives = 29/84 (34%), Gaps = 12/84 (14%)
Query: 36 PAPAPRPTPATPAPVQAQPTMPAPMAAPQQGPGLMAQMAATA-----GGVAIGSAV--GH 88
P A PAT AP + + P P ++ A G+A G+A
Sbjct: 645 PDGAVLLHPATVAPGETLADVLRPWLDPPVSAERQPEVDPAAVTRVLEGIACGTADAGAA 704
Query: 89 TIGHAVTGMFS-----GSDSKEAA 107
V G F G+ +K AA
Sbjct: 705 HTWIDVDGRFRLGVLRGAWAKPAA 728
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.312 0.123 0.371
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,444,688
Number of extensions: 661291
Number of successful extensions: 4603
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2926
Number of HSP's successfully gapped: 738
Length of query: 150
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 62
Effective length of database: 7,034,450
Effective search space: 436135900
Effective search space used: 436135900
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: 54 (24.8 bits)