RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780892|ref|YP_003065305.1| probable two-component
response regulator protein [Candidatus Liberibacter asiaticus str.
psy62]
(133 letters)
>gnl|CDD|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein
AtoC; Provisional.
Length = 457
Score = 37.5 bits (87), Expect = 0.001
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 7/130 (5%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVID---ESMEGVL 60
+L+VD VR++ F GF A + A ++ P+ +++D M+G +
Sbjct: 7 ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALH-LFADIHPDVVLMDIRMPEMDG-I 64
Query: 61 EFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETLRFAMRELPQM 120
+ + +R T V + EV E + R GA +++KPF+ + L ++ Q+
Sbjct: 65 KALKEMRSHETRTPVILMTAYAEV--ETAVEALRCGAFDYVIKPFDLDELNLIVQRALQL 122
Query: 121 QKSKDENQFL 130
Q K E + L
Sbjct: 123 QSMKKEIRHL 132
>gnl|CDD|170568 PRK10610, PRK10610, chemotaxis regulatory protein CheY;
Provisional.
Length = 129
Score = 35.7 bits (82), Expect = 0.004
Identities = 31/110 (28%), Positives = 55/110 (50%), Gaps = 4/110 (3%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFM-VFEATSVCEAREFCEKELLPNYLVIDESMEGV--L 60
L+VD +R++ R+L + GF V EA +A + +++ D +M + L
Sbjct: 8 FLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGF-GFVISDWNMPNMDGL 66
Query: 61 EFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETL 110
E + +R + + V + E E +IA A+AGA+ +++KPF TL
Sbjct: 67 ELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116
>gnl|CDD|182277 PRK10161, PRK10161, transcriptional regulator PhoB; Provisional.
Length = 229
Score = 33.9 bits (77), Expect = 0.013
Identities = 29/123 (23%), Positives = 57/123 (46%), Gaps = 7/123 (5%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVIDESMEGV--LE 61
+L+V+ +R++ + GF EA A E P+ +++D + G ++
Sbjct: 5 ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQL-NEPWPDLILLDWMLPGGSGIQ 63
Query: 62 FIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETL----RFAMREL 117
FI H+++ + D+ V L + E + G GA+ ++ KPF+ + L + MR +
Sbjct: 64 FIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI 123
Query: 118 PQM 120
M
Sbjct: 124 SPM 126
>gnl|CDD|131209 TIGR02154, PhoB, phosphate regulon transcriptional regulatory
protein PhoB. PhoB is a DNA-binding response regulator
protein acting with PhoR in a 2-component system
responding to phosphate ion. PhoB acts as a positive
regulator of gene expression for phosphate-related genes
such as phoA, phoS, phoE and ugpAB as well as itself. It
is often found proximal to genes for the high-affinity
phosphate ABC transporter (pstSCAB; GenProp0190) and
presumably regulates these as well.
Length = 226
Score = 33.1 bits (76), Expect = 0.024
Identities = 27/116 (23%), Positives = 51/116 (43%), Gaps = 10/116 (8%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVIDESMEGV--LE 61
+L+V+ +R++ + G+ V EA EA E P+ +++D + G +E
Sbjct: 5 ILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLI-NERGPDLILLDWMLPGTSGIE 63
Query: 62 FIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETLRFAMREL 117
+R+ P + + L + E + G GA+ ++ KP F+ REL
Sbjct: 64 LCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKP-------FSPREL 112
>gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional.
Length = 444
Score = 31.0 bits (70), Expect = 0.11
Identities = 37/135 (27%), Positives = 63/135 (46%), Gaps = 9/135 (6%)
Query: 3 SLLLVDSS-HIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKE---LLPNYLVIDESMEG 58
LLLVD +++ +G L ++ G+ V A S EA +E L+ + L +DE M+G
Sbjct: 7 HLLLVDDDPGLLKLLGMRLTSE-GYSVVTAESGQEALRVLNREKVDLVISDLRMDE-MDG 64
Query: 59 VLEFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETLRFAMRELP 118
+ F + P G V + L +A + G SFL KP +R+ L A+ +
Sbjct: 65 MQLFAEIQKVQP-GMPVII--LTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDAL 121
Query: 119 QMQKSKDENQFLDAI 133
+ + ++ +AI
Sbjct: 122 EQSAPATDERWREAI 136
>gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional.
Length = 216
Score = 30.4 bits (69), Expect = 0.14
Identities = 30/119 (25%), Positives = 59/119 (49%), Gaps = 9/119 (7%)
Query: 3 SLLLVDSSHIVRKVGRHLFN---DFGFMVFEATSVCEAREFCEKELLPNYLVIDESMEGV 59
++LL+D ++R + L + D V EA++ + E E L P+ +++D +M G+
Sbjct: 8 TILLIDDHPMLRTGVKQLISMAPDITV-VGEASNGEQGIELAE-SLDPDLILLDLNMPGM 65
Query: 60 --LEFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETLRFAMRE 116
LE + +R+ L + V + E ++ + GA+ +LLK E L A+++
Sbjct: 66 NGLETLDKLREKSLSGRIVV--FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQ 122
>gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD;
Provisional.
Length = 221
Score = 28.9 bits (65), Expect = 0.39
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 50 LVIDESMEGV--LEFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNR 107
V+D +M G+ LE + +R+ G + V L + G GA+ +L KPF
Sbjct: 48 AVLDINMPGMDGLEVLQRLRKR--GQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFEL 105
Query: 108 ETLRFAMREL 117
E L +R L
Sbjct: 106 EELDARLRAL 115
>gnl|CDD|183013 PRK11173, PRK11173, two-component response regulator; Provisional.
Length = 237
Score = 28.8 bits (65), Expect = 0.47
Identities = 32/113 (28%), Positives = 57/113 (50%), Gaps = 10/113 (8%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVIDESMEGVLEFI 63
+L+V+ + R + +F G+ VFEAT E + + + N +++D ++ G +
Sbjct: 6 ILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSENDI-NLVIMDINLPGKNGLL 64
Query: 64 AHVRQMPLGTDVFVYYLL---MEVDFEKMIAGARAGANSFLLKPFN-RE-TLR 111
R++ +V + +L EVD I G GA+ ++ KPFN RE T+R
Sbjct: 65 L-ARELREQANVALMFLTGRDNEVD---KILGLEIGADDYITKPFNPRELTIR 113
>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
Length = 1017
Score = 28.6 bits (64), Expect = 0.49
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 92 GARAGANSFLLKPFNRETLRFAMRELPQMQKSKDE 126
G ++G FLLKP+N E R M LP +Q +E
Sbjct: 601 GVQSGIGGFLLKPWN-ERERTQMELLPLVQAKLEE 634
>gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE;
Provisional.
Length = 225
Score = 28.2 bits (63), Expect = 0.64
Identities = 36/128 (28%), Positives = 59/128 (46%), Gaps = 24/128 (18%)
Query: 1 MDSLLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELL------PNYLVIDE 54
M ++L+V+ +R+ R G VFEA E ++ LL P+ +++D
Sbjct: 1 MTNVLIVEDEQAIRRFLRTALEGDGMRVFEA-------ETLQRGLLEAATRKPDLIILDL 53
Query: 55 SM---EGVLEFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFN----R 107
+ +G +EFI +RQ + + V L + IA AGA+ +L KPF +
Sbjct: 54 GLPDGDG-IEFIRDLRQW---SAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQ 109
Query: 108 ETLRFAMR 115
LR A+R
Sbjct: 110 ARLRVALR 117
>gnl|CDD|162545 TIGR01818, ntrC, nitrogen regulation protein NR(I). This model
represents NtrC, a DNA-binding response regulator that
is phosphorylated by NtrB and interacts with sigma-54.
NtrC usually controls the expression of glutamine
synthase, GlnA, and may be called GlnL, GlnG, etc.
Length = 463
Score = 27.8 bits (62), Expect = 0.99
Identities = 22/94 (23%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 47 PNYLVIDESMEGV--LEFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKP 104
P+ L+ D M G L+ + +++ V V + D + +A + GA +L KP
Sbjct: 43 PDLLITDVRMPGEDGLDLLPQIKKRHPQLPVIV--MTAHSDLDTAVAAYQRGAFEYLPKP 100
Query: 105 FN-RETLRFAMRELP----QMQKSKDENQFLDAI 133
F+ E + R L Q+ D + D+
Sbjct: 101 FDLDEAVTLVERALAHAQEQVALPADAGEAEDSA 134
>gnl|CDD|167031 PRK00708, PRK00708, sec-independent translocase; Provisional.
Length = 209
Score = 27.5 bits (61), Expect = 1.1
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 86 FEKMIAGARAGANSFLLKPFNRETLRFAMRELPQMQKSKDENQFLD 131
F KM A R A F + F+ E LR A EL ++++ + + L+
Sbjct: 32 FGKMTARMRKMAGEF-RRQFD-EALREA--ELDDVRQTISDARSLN 73
>gnl|CDD|131922 TIGR02875, spore_0_A, sporulation transcription factor Spo0A.
Spo0A, the stage 0 sporulation protein A, is a
transcription factor critical for the initiation of
sporulation. It contains a response regulator receiver
domain (pfam00072). In Bacillus subtilis, it works
together with response regulator Spo0F and the
phosphotransferase Spo0B, both of which are missing from
at least some sporulating species and thus not part of
the endospore forming bacteria minimal gene set. Spo0A,
however, is universal among endospore-forming species.
Length = 262
Score = 27.5 bits (61), Expect = 1.1
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 14/85 (16%)
Query: 43 KELLPNYLVIDESME-----GVLEFIAHV--RQMPLGTDVFVYYLLMEVDFEKMIAGARA 95
KE P+ +V+D M GVLE + + P +L EK+ A A
Sbjct: 45 KEQQPDVVVLDIIMPHLDGIGVLEKLNEIELSARP------RVIMLSAFGQEKITQRAVA 98
Query: 96 -GANSFLLKPFNRETLRFAMRELPQ 119
GA+ ++LKPF+ E L +R+L
Sbjct: 99 LGADYYVLKPFDLEILAARIRQLAW 123
>gnl|CDD|181693 PRK09198, PRK09198, putative nicotinate phosphoribosyltransferase;
Provisional.
Length = 463
Score = 27.2 bits (61), Expect = 1.3
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 96 GANSFLLKPFNRETLRFAM 114
G LL+ NR+T FAM
Sbjct: 363 GMGGALLQYVNRDTQGFAM 381
>gnl|CDD|177421 PHA02594, nadV, nicotinamide phosphoribosyl transferase;
Provisional.
Length = 470
Score = 26.5 bits (59), Expect = 2.1
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 63 IAHVRQMPLGTDVFVYYLLMEVD--FEKMIAGARAGANSFLLKPF 105
++H Q P GTD ++YL F+K++ G F+ K F
Sbjct: 19 LSHWSQYPKGTDYVMFYLEPRGGKFFDKVVVF---GIQYFVKKYF 60
>gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional.
Length = 239
Score = 26.1 bits (58), Expect = 3.3
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 11/52 (21%)
Query: 83 EVDFEKMIAGARAGANSFLLKPFN-RE-------TLRFAMRELPQMQKSKDE 126
EVD I G GA+ +L KPFN RE LR ELP ++E
Sbjct: 89 EVD---RIVGLEIGADDYLPKPFNPRELLARIRAVLRRQAPELPGAPSQEEE 137
>gnl|CDD|181897 PRK09483, PRK09483, response regulator; Provisional.
Length = 217
Score = 25.8 bits (57), Expect = 3.8
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 1 MDSLLLVDSSHIVRKVGRHLFNDF-GFMVF-EATSVCEAREFCEKELLPNYLVIDESMEG 58
M ++LLVD +VR R + D G V EA +A ++C + +++D +M G
Sbjct: 1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTN-AVDVVLMDMNMPG 59
Query: 59 V 59
+
Sbjct: 60 I 60
>gnl|CDD|128724 smart00448, REC, cheY-homologous receiver domain. CheY regulates
the clockwise rotation of E. coli flagellar motors.
This domain contains a phosphoacceptor site that is
phosphorylated by histidine kinase homologues.
Length = 55
Score = 25.6 bits (57), Expect = 4.2
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 3 SLLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVID 53
+L+VD ++R++ + L G+ V EAT EA E KE P+ +++D
Sbjct: 2 RILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELL-KEEKPDLILLD 51
>gnl|CDD|183304 PRK11767, PRK11767, SpoVR family protein; Provisional.
Length = 498
Score = 25.6 bits (57), Expect = 4.4
Identities = 13/27 (48%), Positives = 14/27 (51%), Gaps = 9/27 (33%)
Query: 107 RETLRFAMRELPQMQKSKDEN---QFL 130
ETL FAMR KDE+ QFL
Sbjct: 361 LETLHFAMRNF------KDESFISQFL 381
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component
regulatory system with EvgA; Provisional.
Length = 1197
Score = 25.5 bits (55), Expect = 4.6
Identities = 29/131 (22%), Positives = 53/131 (40%), Gaps = 5/131 (3%)
Query: 3 SLLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNY--LVIDESMEGVL 60
S+L+ D R + + N G+ V EAT +A K + +Y L+ D +M +
Sbjct: 960 SILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQA---LHKVSMQHYDLLITDVNMPNMD 1016
Query: 61 EFIAHVRQMPLGTDVFVYYLLMEVDFEKMIAGARAGANSFLLKPFNRETLRFAMRELPQM 120
F + + + ++ L + G G N L KP + L+ + +L Q+
Sbjct: 1017 GFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQV 1076
Query: 121 QKSKDENQFLD 131
+ + LD
Sbjct: 1077 AHIAPQYRHLD 1087
>gnl|CDD|182612 PRK10643, PRK10643, DNA-binding transcriptional regulator BasR;
Provisional.
Length = 222
Score = 25.4 bits (56), Expect = 5.0
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 90 IAGARAGANSFLLKPFNRETLRFAMRELPQMQKSKDENQ 128
+AG GA+ +L+KPF E L +R L + + + EN+
Sbjct: 88 VAGLDVGADDYLVKPFALEELHARIRALIRRHQGQGENE 126
>gnl|CDD|131323 TIGR02270, TIGR02270, conserved hypothetical protein. Members are
found in Myxococcus xanthus (six members), Geobacter
sulfurreducens, and Pseudomonas aeruginosa; a short
protein homologous to the N-terminal region is found in
Mesorhizobium loti. All sequence are from
Proteobacteria. The function is unknown.
Length = 410
Score = 24.8 bits (54), Expect = 7.1
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 86 FEKMIAGARAGANSFLLKPFNRETLRFAMRELPQMQK 122
+ + + G KP +E+L A+RE ++
Sbjct: 345 WAENAPRFKPGVRYLRGKPLGQESLLDALREGSMRRR 381
>gnl|CDD|162833 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A'.
This family consists of the archaeal A' subunit of the
DNA-directed RNA polymerase. The example from
Methanocaldococcus jannaschii contains an intein.
Length = 868
Score = 24.7 bits (54), Expect = 8.3
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 7/52 (13%)
Query: 17 GRHLFNDF---GFMVFEATSVCEAREFCEKELLPN--YLVID--ESMEGVLE 61
G+ +F+ F +C + C+KE P+ Y+VI + ++GV++
Sbjct: 545 GKQIFSAFLPEDLNFEGRAKICSGSDACKKEECPHDAYVVIKNGKLLKGVID 596
>gnl|CDD|184436 PRK13981, PRK13981, NAD synthetase; Provisional.
Length = 540
Score = 24.3 bits (54), Expect = 8.9
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 43 KELLPNYLVIDE 54
K+ LPNY V DE
Sbjct: 109 KQDLPNYGVFDE 120
>gnl|CDD|183389 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 24.4 bits (54), Expect = 9.2
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 72 GTDVFVYYLLMEVDF 86
G D YYLL EV F
Sbjct: 318 GLDALRYYLLREVPF 332
>gnl|CDD|184141 PRK13557, PRK13557, histidine kinase; Provisional.
Length = 540
Score = 24.2 bits (53), Expect = 9.5
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 4 LLLVDSSHIVRKVGRHLFNDFGFMVFEATSVCEAREFCEKELLPNYLVIDESMEG 58
+L+VD V ++ R + DFG+ A++ EA E + + L D M G
Sbjct: 418 ILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPG 472
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.327 0.141 0.404
Gapped
Lambda K H
0.267 0.0646 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,195,868
Number of extensions: 133281
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 41
Length of query: 133
Length of database: 5,994,473
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,201,009
Effective search space: 210050450
Effective search space used: 210050450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.0 bits)