RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2889
(163 letters)
>gnl|CDD|180240 PRK05759, PRK05759, F0F1 ATP synthase subunit B; Validated.
Length = 156
Score = 96.0 bits (240), Expect = 6e-26
Identities = 51/137 (37%), Positives = 81/137 (59%)
Query: 27 FTKKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLT 86
F KF+WPP++KAL++R+KKIAD LAAA K+++ + + + +L E I
Sbjct: 20 FIMKFVWPPIMKALEERQKKIADGLAAAERAKKELELAQAKYEAQLAEARAEAAEIIEQA 79
Query: 87 EKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNK 146
+K+ IIE++K +A EA I A+ EI ++ ARE L ++ +LA+ AEKIL +
Sbjct: 80 KKRAAQIIEEAKAEAEAEAARIKAQAQAEIEQERKRAREELRKQVADLAVAGAEKILGRE 139
Query: 147 ITIEVNSSLLNQLKIEL 163
+ S L+++L EL
Sbjct: 140 LDAAAQSDLIDKLIAEL 156
>gnl|CDD|130214 TIGR01144, ATP_synt_b, ATP synthase, F0 subunit b. This model
describes the F1/F0 ATP synthase b subunit in bacteria
only. Scoring just below the trusted cutoff are the
N-terminal domains of Mycobacterial b/delta fusion
proteins and a subunit from an archaeon, Methanosarcina
barkeri, in which the ATP synthase homolog differs in
architecture and is not experimentally confirmed. This
model helps resolve b from the related b' subunit.
Within the family is an example from a
sodium-translocating rather than proton-translocating
ATP synthase [Energy metabolism, ATP-proton motive force
interconversion].
Length = 147
Score = 78.2 bits (193), Expect = 4e-19
Identities = 49/137 (35%), Positives = 78/137 (56%)
Query: 27 FTKKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLT 86
F K++WPPL KA++ R+KKIAD LA+A K++ + +K+ Q L +E + I
Sbjct: 11 FCMKYVWPPLAKAIETRQKKIADGLASAERAKKEAALAQKKAQVILKEAKDEAQEIIENA 70
Query: 87 EKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNK 146
K+ I+E++K +A EE I AR EI + ARE L ++ +L++ AEKI+
Sbjct: 71 NKRGSEILEEAKAEAREEREKIKAQARAEIEAEKEQAREELRKQVADLSVLGAEKIIERN 130
Query: 147 ITIEVNSSLLNQLKIEL 163
I + L+++L EL
Sbjct: 131 IDKQAQKDLIDKLVAEL 147
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 67.3 bits (165), Expect = 9e-15
Identities = 48/137 (35%), Positives = 69/137 (50%)
Query: 27 FTKKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLT 86
KKF+W P++KALD+R+ KIAD LA A KE+ ++EL E+ I
Sbjct: 22 LLKKFVWKPILKALDERQAKIADDLAEAERLKEEAQALLAEYEQELEEAREQASEIIEQA 81
Query: 87 EKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNK 146
+K+ + I E+ K +A EE I A EI + A E L E+ LA+ AEK+L K
Sbjct: 82 KKEAEQIAEEIKAEAEEELERIKEAAEAEIEAEKERALEELRAEVAELAVAIAEKLLGKK 141
Query: 147 ITIEVNSSLLNQLKIEL 163
+ L++ EL
Sbjct: 142 VDEAAQKDLIDAFIAEL 158
>gnl|CDD|109486 pfam00430, ATP-synt_B, ATP synthase B/B' CF(0). Part of the CF(0)
(base unit) of the ATP synthase. The base unit is
thought to translocate protons through membrane (inner
membrane in mitochondria, thylakoid membrane in plants,
cytoplasmic membrane in bacteria). The B subunits are
thought to interact with the stalk of the CF(1)
subunits. This domain should not be confused with the ab
CF(1) proteins (in the head of the ATP synthase) which
are found in pfam00006.
Length = 132
Score = 52.6 bits (127), Expect = 2e-09
Identities = 33/116 (28%), Positives = 61/116 (52%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
F + PL K LD+RK+KIA+ + A ++ + +++L E IN +K
Sbjct: 17 IYFGYKPLGKILDERKEKIANNIKEAEERLKQAAALLAEAEQQLAQARAEASEIINNAKK 76
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILN 144
+ + + E+ +A ++A +L +AR EI ++ A L ++ LA++ AEK+L
Sbjct: 77 EAQKLKEEILAEAQKDAERLLESARAEIEQEKEQALAELRQQVAALAVQIAEKLLG 132
>gnl|CDD|180481 PRK06231, PRK06231, F0F1 ATP synthase subunit B; Validated.
Length = 205
Score = 52.2 bits (125), Expect = 6e-09
Identities = 34/132 (25%), Positives = 66/132 (50%)
Query: 32 IWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCK 91
W P + L+ RK+ I + AN K++ + ++ + K I+ +
Sbjct: 69 FWKPTQRFLNKRKELIEAEINQANELKQQAQQLLENAKQRHENALAQAKEIIDQANYEAL 128
Query: 92 LIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKITIEV 151
+ + +K+A +AN+I++ AR EI K+ +E L E V LA+ +AE+++ K+ E
Sbjct: 129 QLKSELEKEANRQANLIIFQARQEIEKERRELKEQLQKESVELAMLAAEELIKKKVDRED 188
Query: 152 NSSLLNQLKIEL 163
+ L+++ EL
Sbjct: 189 DDKLVDEFIREL 200
>gnl|CDD|184695 PRK14471, PRK14471, F0F1 ATP synthase subunit B; Provisional.
Length = 164
Score = 49.0 bits (117), Expect = 6e-08
Identities = 32/118 (27%), Positives = 62/118 (52%), Gaps = 6/118 (5%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANS---EKEKVSYDRKRIQKELIATHEENKNRINL 85
KF W P++ A+ +R+ I + LA+A E + + D +R+ KE A E +
Sbjct: 26 AKFAWKPILGAVKEREDSIKNALASAEEARKEMQNLQADNERLLKEARA---ERDAILKE 82
Query: 86 TEKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKIL 143
+ + +I +K++A E + ++ A+ I + N A + N++ NL+++ AEK+L
Sbjct: 83 AREIKEKMIADAKEEAQVEGDKMIEQAKASIESEKNAAMAEIKNQVANLSVEIAEKVL 140
>gnl|CDD|172947 PRK14472, PRK14472, F0F1 ATP synthase subunit B; Provisional.
Length = 175
Score = 47.1 bits (112), Expect = 4e-07
Identities = 38/139 (27%), Positives = 76/139 (54%), Gaps = 8/139 (5%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
KK W P++ AL++R+K I + A+S K++ ++ +EL+A + ++I +
Sbjct: 36 KKIAWGPILSALEEREKGIQSSIDRAHSAKDEAEAILRK-NRELLAKADAEADKI---IR 91
Query: 89 QCKLIIEKSK----KKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILN 144
+ K EK + +KA EA ++ +A+ EI ++ A + L NE+ +LA+K AEKI+
Sbjct: 92 EGKEYAEKLRAEITEKAHTEAKKMIASAKEEIEQEKRRALDVLRNEVADLAVKGAEKIIR 151
Query: 145 NKITIEVNSSLLNQLKIEL 163
+ + +++ + +L
Sbjct: 152 TSLDADKQKKVVDSMIQDL 170
>gnl|CDD|184064 PRK13461, PRK13461, F0F1 ATP synthase subunit B; Provisional.
Length = 159
Score = 43.5 bits (103), Expect = 6e-06
Identities = 29/119 (24%), Positives = 63/119 (52%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
K F + + +D R+ +I + + A+ +++K + + ++EL EE K + +
Sbjct: 23 KHFFFDKIKAVIDSRQSEIDNKIEKADEDQKKARELKLKNERELKNAKEEGKKIVEEYKS 82
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKI 147
+ + + E+ K+A EEA++I+ A++E ++ A + N+ V+LA+ + K L I
Sbjct: 83 KAENVYEEIVKEAHEEADLIIERAKLEAQREKEKAEYEIKNQAVDLAVLLSSKALEESI 141
>gnl|CDD|184060 PRK13453, PRK13453, F0F1 ATP synthase subunit B; Provisional.
Length = 173
Score = 41.0 bits (96), Expect = 5e-05
Identities = 31/120 (25%), Positives = 58/120 (48%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
KKF W PL +D R++ I + A K + +++L T EE + + +
Sbjct: 36 KKFAWGPLKDVMDKRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQEEVQKILEDAKV 95
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKIT 148
Q + E+ +A AN ++ A+ EI Q A +++N++ L++ A K+L +I+
Sbjct: 96 QARQQQEQIIHEANVRANGMIETAQSEINSQKERAIADINNQVSELSVLIASKVLRKEIS 155
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 41.2 bits (97), Expect = 7e-05
Identities = 33/108 (30%), Positives = 54/108 (50%), Gaps = 13/108 (12%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
K+F++ P++ A+D R+KKIA LA A D K+ + E E KN ++
Sbjct: 23 KRFLYRPILDAMDAREKKIAGELADA---------DTKKREAEQERREYEEKN--EELDQ 71
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIAR-ENLHNEIVNLA 135
Q ++++ K+K++A E +L AR E +I E L E L+
Sbjct: 72 QREVLLTKAKEEAQAERQRLLDEAREE-ADEIREKWQEALRREQAALS 118
>gnl|CDD|169691 PRK09173, PRK09173, F0F1 ATP synthase subunit B; Validated.
Length = 159
Score = 40.5 bits (95), Expect = 8e-05
Identities = 34/132 (25%), Positives = 62/132 (46%), Gaps = 18/132 (13%)
Query: 36 LIKALDDRKKKIADILAAANSEKEKVS-----YDRKRIQKELIATHEENKNRINLTEKQC 90
+ ++LD R +I + LA A +E+ Y RKR + E +E + + E++
Sbjct: 27 IARSLDARADRIKNELAEARRLREEAQQLLAEYQRKRKEAE-----KEAADIVAAAEREA 81
Query: 91 KLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEI----VNLAIKSAEKILNNK 146
+ + ++K+K E + N E ++I A + N + V+LAI +AEK+L K
Sbjct: 82 EALTAEAKRKT--EEYVARRNKLAE--QKIAQAETDAINAVRSSAVDLAIAAAEKLLAEK 137
Query: 147 ITIEVNSSLLNQ 158
+ + S L
Sbjct: 138 VDAKAASELFKD 149
>gnl|CDD|214369 CHL00118, atpG, ATP synthase CF0 B' subunit; Validated.
Length = 156
Score = 40.0 bits (94), Expect = 1e-04
Identities = 31/111 (27%), Positives = 58/111 (52%)
Query: 35 PLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLII 94
PL+K LD+RK+ I L A+ K + K+ ++EL +E + I ++K+ K I+
Sbjct: 46 PLLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSKARKEAQLEITQSQKEAKEIV 105
Query: 95 EKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNN 145
E K+A + + +L A ++ Q A ++L ++ L+ + EK+L
Sbjct: 106 ENELKQAQKYIDSLLNEATKQLEAQKEKALKSLEEQVDTLSDQIEEKLLIK 156
>gnl|CDD|139585 PRK13460, PRK13460, F0F1 ATP synthase subunit B; Provisional.
Length = 173
Score = 35.8 bits (82), Expect = 0.004
Identities = 35/126 (27%), Positives = 59/126 (46%), Gaps = 8/126 (6%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
KKF W ++KALD+R + + + A+ + + K + L + +E N I K
Sbjct: 34 KKFAWDVILKALDERASGVQNDINKASELRLEAEALLKDYEARLNSAKDE-ANAIVAEAK 92
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIAR----ENLHNEIVNLAIKSAEKILN 144
L K K K EE N + + + +K+I +A+ L N+IV + I A K+L
Sbjct: 93 SDAL---KLKNKLLEETNNEVKAQKDQAVKEIELAKGKALSQLQNQIVEMTITIASKVLE 149
Query: 145 NKITIE 150
++ E
Sbjct: 150 KQLKKE 155
>gnl|CDD|184696 PRK14474, PRK14474, F0F1 ATP synthase subunit B; Provisional.
Length = 250
Score = 31.7 bits (72), Expect = 0.14
Identities = 17/102 (16%), Positives = 51/102 (50%), Gaps = 11/102 (10%)
Query: 29 KKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEK 88
++F++ P+I+ + R+++IA+ A +++ + +R +++ + +L ++
Sbjct: 23 RRFLYKPIIQVMKKRQQRIANRWQDAEQRQQEAGQEAERYRQK----------QQSLEQQ 72
Query: 89 QCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNE 130
+ + ++++ A E+ +L AR ++ + E L E
Sbjct: 73 RASFMA-QAQEAADEQRQHLLNEAREDVATARDEWLEQLERE 113
>gnl|CDD|235999 PRK07353, PRK07353, F0F1 ATP synthase subunit B'; Validated.
Length = 140
Score = 30.0 bits (68), Expect = 0.33
Identities = 23/109 (21%), Positives = 48/109 (44%)
Query: 35 PLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLII 94
P+ K +++R+ I A A + + +++L + ++ + I E + +
Sbjct: 29 PVGKVVEEREDYIRTNRAEAKERLAEAEKLEAQYEQQLASARKQAQAVIAEAEAEADKLA 88
Query: 95 EKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKIL 143
++ +A EA AR EI +Q A L ++ L+ + EK+L
Sbjct: 89 AEALAEAQAEAQASKEKARREIEQQKQAALAQLEQQVDALSRQILEKLL 137
>gnl|CDD|218806 pfam05911, DUF869, Plant protein of unknown function (DUF869).
This family consists of a number of sequences found in
Arabidopsis thaliana, Oryza sativa and Lycopersicon
esculentum (Tomato). The function of this family is
unknown.
Length = 767
Score = 30.7 bits (69), Expect = 0.36
Identities = 30/114 (26%), Positives = 58/114 (50%), Gaps = 14/114 (12%)
Query: 41 DDRKKKIADILAAANSEKEKVSYDRKR----IQKELIATHEENKNRINLTEKQCKLIIEK 96
+++++KI D E EKV + ++ +QKEL EN +++ K+I+E
Sbjct: 66 EEQEQKIQDAATEKTKEWEKVKAELEKKLLELQKELARAAAENDALSRSLQEKSKMIMEL 125
Query: 97 SKKKATEEANIILYNARVEII-KQINIARENLH---------NEIVNLAIKSAE 140
S++K+ E+ I AR+E K+ + + +H NE N++++SA+
Sbjct: 126 SEEKSRAESEIEDLKARLESAEKENSSLKYEVHVLSKELEIRNEERNMSLQSAD 179
>gnl|CDD|233229 TIGR00999, 8a0102, Membrane Fusion Protein cluster 2 (function with
RND porters). [Transport and binding proteins, Other].
Length = 265
Score = 30.1 bits (68), Expect = 0.47
Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 46 KIADILAAA--NSEKEKVSYDRKR--IQKELIATHEENKNRINLTEKQCKLIIEKSKKKA 101
K+A L A E + +Y+R++ ++ +I E L E Q ++ KS+ ++
Sbjct: 20 KMAAELKVAQKRVELARKTYEREKKLFEQGVIPRQEFESAEYALEEAQAEVQAAKSELRS 79
Query: 102 TEEAN 106
EA
Sbjct: 80 AREAK 84
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 29.2 bits (66), Expect = 1.2
Identities = 30/142 (21%), Positives = 54/142 (38%), Gaps = 17/142 (11%)
Query: 18 GIRRTIKCCFTKKFIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHE 77
G+RR + ++ +D K+IA +L KV +R+ +EL +
Sbjct: 694 GVRRIEAVTGEAALEY---LQEQEDLLKEIASLLKVPPELLPKV----ERLLEELKELEK 746
Query: 78 ENKNRINLTEKQCK--LIIEKSKKKATEEANIILYNARVEIIKQ---INIARENLHNEIV 132
E L +K L S KA E + + V+ IA ++L ++
Sbjct: 747 EL---ERLKKKLAAAELADLLSNAKAEEIGGVKVLAKEVDGADMKELREIA-DDLKKKLG 802
Query: 133 NLAIKSAEKILNNKITIEVNSS 154
+ I A + K+++ V S
Sbjct: 803 SAVIVLASVA-DGKVSLVVAVS 823
>gnl|CDD|180530 PRK06328, PRK06328, type III secretion system protein; Validated.
Length = 223
Score = 28.6 bits (64), Expect = 1.2
Identities = 18/81 (22%), Positives = 41/81 (50%)
Query: 69 QKELIATHEENKNRINLTEKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENLH 128
Q+ L T E+++ T ++C+ + E++K + +E + + ++ RE +
Sbjct: 32 QELLEKTKEDSEAYTQETHEECEKLREEAKNQGFKEGSKAWSKQLAFLEEETQKLREQVK 91
Query: 129 NEIVNLAIKSAEKILNNKITI 149
+V LAI S +KI+ ++ +
Sbjct: 92 EALVPLAIASVKKIIGKELEL 112
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 28.0 bits (63), Expect = 2.6
Identities = 14/73 (19%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 33 WPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKL 92
L L+++++++ L + + S +RK ++ ++ R+ L+E++ ++
Sbjct: 182 LEGLAAELEEKQQELEAQLEQLQEKAAETSQERK---QKRKEITDQAAKRLELSEEETRI 238
Query: 93 IIEKSKKKATEEA 105
+I++ +KA EA
Sbjct: 239 LIDQQLRKAGWEA 251
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.1 bits (63), Expect = 2.9
Identities = 19/87 (21%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 37 IKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEE-NKNRINLTEKQCKLIIE 95
I L++ K+ A + + E+++ D + ++EL EE ++ L++ Q +L
Sbjct: 436 INELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEA 495
Query: 96 KSKKKATEEANIILYNARVEIIKQINI 122
+++ +A+EE VE + + +I
Sbjct: 496 EAQARASEERVR--GGRAVEEVLKASI 520
>gnl|CDD|172948 PRK14473, PRK14473, F0F1 ATP synthase subunit B; Provisional.
Length = 164
Score = 27.2 bits (60), Expect = 3.2
Identities = 23/128 (17%), Positives = 62/128 (48%)
Query: 31 FIWPPLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQC 90
F++ P++ L++R ++I + L A +E+++ ++ + EL +E + +++
Sbjct: 28 FLYRPVLNLLNERTRRIEESLRDAEKVREQLANAKRDYEAELAKARQEAAKIVAQAQERA 87
Query: 91 KLIIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKITIE 150
+ + +A EA I AR + ++ L ++I +L +A ++L ++
Sbjct: 88 RAQEAEIIAQARREAEKIKEEARAQAEQERQRMLSELKSQIADLVTLTASRVLGAELQAR 147
Query: 151 VNSSLLNQ 158
+ +L+ +
Sbjct: 148 GHDALIAE 155
>gnl|CDD|130083 TIGR01010, BexC_CtrB_KpsE, polysaccharide export inner-membrane
protein, BexC/CtrB/KpsE family. This family contains
gamma proteobacterial proteins involved in capsule
polysaccharide export [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 362
Score = 27.4 bits (61), Expect = 3.5
Identities = 10/47 (21%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 118 KQINIARENLHNEIVNL-AIKSAEKILNNKITIEVNSSLLNQLKIEL 163
++ A + L+ L + K+ + K SL++ L+ EL
Sbjct: 177 NEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGEL 223
>gnl|CDD|115526 pfam06875, PRF, Plethodontid receptivity factor PRF. This family
consists of several plethodontid receptivity factor
(PRF) proteins which seem to be specific to Plethodon
jordani (Jordan's salamander). PRF is a courtship
pheromone produced by males increase female receptivity.
Length = 214
Score = 26.6 bits (58), Expect = 5.3
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 106 NIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKITIEVNSSLLNQLKIEL 163
N+ Y+A VE +K+ +E+L+ + L K E + N+ I S ++ Q+ + +
Sbjct: 104 NLYFYSAIVEFLKEAMTEQEDLNPAELALKAKFEEAMANSNTLISKISDIMTQMGMSV 161
>gnl|CDD|240343 PTZ00280, PTZ00280, Actin-related protein 3; Provisional.
Length = 414
Score = 26.6 bits (59), Expect = 7.0
Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 40 LDDRKKKI--ADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLIIEKS 97
L +R + I DIL A KEK Y I KE + KN K+ + +
Sbjct: 205 LRERGEPIPAEDILLLAQRIKEKYCYVAPDIAKEFEKYDSDPKNHF----KKYTAVNSVT 260
Query: 98 KKKAT 102
KK T
Sbjct: 261 KKPYT 265
>gnl|CDD|181442 PRK08476, PRK08476, F0F1 ATP synthase subunit B'; Validated.
Length = 141
Score = 26.2 bits (58), Expect = 7.2
Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 11/96 (11%)
Query: 35 PLIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLII 94
PL+K +D+R I + L + VS I+ L EE I
Sbjct: 31 PLLKFMDNRNASIKNDLEKVKTNSSDVSEIEHEIETILKNAREE-----------ANKIR 79
Query: 95 EKSKKKATEEANIILYNARVEIIKQINIARENLHNE 130
+K+ KA EEA + + E+ + + L N+
Sbjct: 80 QKAIAKAKEEAEKKIEAKKAELESKYEAFAKQLANQ 115
>gnl|CDD|173488 PTZ00239, PTZ00239, serine/threonine protein phosphatase 2A;
Provisional.
Length = 303
Score = 26.3 bits (58), Expect = 8.1
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 85 LTEKQCKLIIEKSKKKATEEANIILYNARVEIIKQIN 121
L E+ KLI E++K+ EE+N+ A V + I+
Sbjct: 16 LPERDLKLICERAKEIFLEESNVQPVRAPVNVCGDIH 52
>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
Length = 174
Score = 25.7 bits (57), Expect = 9.7
Identities = 23/121 (19%), Positives = 50/121 (41%)
Query: 38 KALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLIIEKS 97
K L++R++ I L A + + Q++L +E + + + + I +
Sbjct: 46 KILEERREAILQALKEAEERLRQAAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEI 105
Query: 98 KKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILNNKITIEVNSSLLN 157
+K+A E+ + A ++ + L E LAI AE L ++ + L++
Sbjct: 106 EKQAIEDMARLKQTAAADLSAEQERVIAQLRREAAELAIAKAESQLPGRLDEDAQQRLID 165
Query: 158 Q 158
+
Sbjct: 166 R 166
>gnl|CDD|130763 TIGR01702, CO_DH_cata, carbon-monoxide dehydrogenase, catalytic
subunit. This model represents the carbon-monoxide
dehydrogenase catalytic subunit. This protein is related
to prismane (also called hybrid cluster protein), a
complex whose activity is not yet fully described; the
two share similar sets of ligands to unusual
metal-containing clusters.
Length = 621
Score = 26.3 bits (58), Expect = 9.9
Identities = 13/58 (22%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 84 NLTEKQCKL---IIEKSKKKATEEANIILYNARVEIIKQINIARENLHNEIVNLAIKS 138
E++ +L + +K+ E+ I+ + E+ ++ NL ++ VNLA+K+
Sbjct: 146 KPREEKAELVEAFAPEKRKEKWEKLGILPGGIKAEVSDAVSKTHTNLDSDPVNLAVKA 203
>gnl|CDD|130529 TIGR01462, greA, transcription elongation factor GreA. The GreA
and GreB transcription elongation factors enable to
continuation of RNA transcription past template-encoded
arresting sites. Among the Proteobacteria, distinct
clades of GreA and GreB are found. GreA differs
functionally in that it releases smaller
oligonucleotides. Because members of the family outside
the Proteobacteria resemble GreA more closely than GreB,
the GreB clade (TIGR01461) forms a plausible outgroup
and the remainder of the GreA/B family, included in this
model, is designated GreA. In the Chlamydias and some
spirochetes, the region described by This model is found
as the C-terminal region of a much larger protein
[Transcription, Transcription factors].
Length = 151
Score = 25.7 bits (57), Expect = 10.0
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 93 IIEKSKKKATEEANIILYNARVEIIKQINIARE 125
+ ++ +K EE + R EI ++I ARE
Sbjct: 2 LTQEGYEKLKEELEYLKTVKRPEISEEIAEARE 34
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
0.316 0.131 0.353
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,899,123
Number of extensions: 740328
Number of successful extensions: 1216
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1163
Number of HSP's successfully gapped: 179
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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 (21.6 bits)
S2: 55 (25.0 bits)