RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780579|ref|YP_003064992.1| hypothetical protein
CLIBASIA_02330 [Candidatus Liberibacter asiaticus str. psy62]
(207 letters)
>gnl|CDD|99750 cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of
mainly bacterial proteins, with a few members found in
fungi, plants, and archaea. Escherichia coli YdcF has
been shown to bind S-adenosyl-L-methionine (AdoMet), but
a biochemical function has not been idenitified. The
family also includes Escherichia coli sanA and
Salmonella typhimurium sfiX, which are involved in
vancomycin resistance; sfiX may also be involved in
murein synthesis..
Length = 150
Score = 95.1 bits (237), Expect = 1e-20
Identities = 40/154 (25%), Positives = 66/154 (42%), Gaps = 18/154 (11%)
Query: 39 AIVVLTGEPI----------RIERAFELLENQIGEKIFISGV---HHSVSKDILLQKIPI 85
AIVVL G R++ A EL K+ +SG S+ + + I
Sbjct: 2 AIVVLGGGVNGDGPSPILAERLDAAAELYRAGPAPKLIVSGGQGPGEGYSEAEAMARYLI 61
Query: 86 RQDLAECCIDIGYKALNTEGNAQEASAWAEKNNFHHVLIVTHDYHMPRTFLELQRINSTV 145
+ I + ++ NT NA+ ++ + VL+VT YHMPR L ++ V
Sbjct: 62 ELGVPAEAILLEDRSTNTYENARFSAELLRERGIRSVLLVTSAYHMPRALLIFRKAGLDV 121
Query: 146 QFIPYPIISHDLEENSSIFKIKILRVLLIEYLKI 179
+ +P P + L +++LR+ L EYL +
Sbjct: 122 EVVPAPTDFYSLSSA-----LRLLRLALREYLGL 150
>gnl|CDD|145708 pfam02698, DUF218, DUF218 domain. This large family of proteins
contains several highly conserved charged amino acids,
suggesting this may be an enzymatic domain (Bateman A
pers. obs). The family includes SanA, which is involved
in Vancomycin resistance. This protein may be involved
in murein synthesis.
Length = 148
Score = 85.4 bits (212), Expect = 9e-18
Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 12/149 (8%)
Query: 39 AIVVLTGEPI-----RIERAFELLENQIGEKIFISG---VHHSVSKDILLQKIPIRQDLA 90
AIVVL G R++ A EL +I +SG VS+ ++++ + +
Sbjct: 4 AIVVL-GGGSPALAARLDAAAELYRAGPAPRIIVSGGAGGGEPVSEAEVMRRYLVELGVP 62
Query: 91 ECCIDIGYKALNTEGNAQEASAWAEKNNFHHVLIVTHDYHMPRTFLELQRINSTVQFIPY 150
I + ++ NT NA+ ++ + VL+VT +HM R L +R V +P
Sbjct: 63 AEAILLEPQSRNTYENARFSAELLRERGLRRVLLVTSAFHMRRALLLFRRAGPEVVPVPA 122
Query: 151 PIISHDLEENSSIFKIKILRVLLIEYLKI 179
+ +++ R L EYL +
Sbjct: 123 DYPTPL---PPRALWLRLARAALREYLGL 148
>gnl|CDD|31623 COG1434, COG1434, Uncharacterized conserved protein [Function
unknown].
Length = 223
Score = 66.7 bits (162), Expect = 5e-12
Identities = 34/158 (21%), Positives = 64/158 (40%), Gaps = 6/158 (3%)
Query: 5 WYGLFVCLIFFIMGFISFIRYVKQMHIPDHPSVSAIVVLTGEPIRIERAFELLEN--QIG 62
L + + + GF+ + P ++ +V+ G R+ L ++
Sbjct: 32 LIILLLAALLILGGFLLRPLEARSAAALLLPGLADAIVVLGGGSRLTDHLIRLLEAARLA 91
Query: 63 EKIFISGVHHS--VSKDILLQKIPIRQDLAECCIDIGYKALNTEGNAQEASAWAEKNNFH 120
+ + ISGV S V + ++ + I + ++ NT NA+ +
Sbjct: 92 KILPISGVLESGGVIEIQATRRYLENLGVPAERIILEDRSRNTVENARFSRRLLRTQGPE 151
Query: 121 HVLIVTHDYHMPRTFLELQRINSTVQFIPYPIISHDLE 158
V++VT YHMPR L +++ +V IPYP+ D
Sbjct: 152 SVILVTSPYHMPRALLLFRKLGISV--IPYPVGFLDRN 187
>gnl|CDD|146239 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 31.0 bits (71), Expect = 0.27
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 15/70 (21%)
Query: 56 LLE--NQIGEKIFISG-----VHHSVSKDILLQKIPIRQDLAECCIDIGYKALNTEGNAQ 108
L+E ++G KI ISG V +SV D L + P AL+
Sbjct: 28 LIEKGKKLGRKILISGGGRCNVTNSVEPDNFLSRYPGNP--HFL-----KSALSRFTP-W 79
Query: 109 EASAWAEKNN 118
+ AW E+
Sbjct: 80 DFIAWFEELG 89
>gnl|CDD|39844 KOG4645, KOG4645, KOG4645, MAPKKK (MAP kinase kinase kinase) SSK2 and
related serine/threonine protein kinases [Signal
transduction mechanisms].
Length = 1509
Score = 30.4 bits (68), Expect = 0.39
Identities = 21/102 (20%), Positives = 31/102 (30%), Gaps = 3/102 (2%)
Query: 57 LENQIGEKIFISGVHHSV--SKDIL-LQKIPIRQDLAECCIDIGYKALNTEGNAQEASAW 113
Q +I I G K ++ L + IRQ + + I Y L E W
Sbjct: 980 ALYQYDREIQIQGYSFGFEYHKSVVRLMEGEIRQKINKAYIRFAYVVLKCESGRGTRPRW 1039
Query: 114 AEKNNFHHVLIVTHDYHMPRTFLELQRINSTVQFIPYPIISH 155
A + N I FL L + ++ H
Sbjct: 1040 ASQGNEFLNAIFAFGRDFGDDFLRLNAFMNECISHVIGLMPH 1081
>gnl|CDD|38405 KOG3195, KOG3195, KOG3195, Uncharacterized membrane protein
NPD008/CGI-148 [General function prediction only].
Length = 213
Score = 28.4 bits (63), Expect = 1.5
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 2 RYFWYGLFVC-LIFFIMGFISFIRY 25
R FW GL++C +I+ I + R+
Sbjct: 123 RIFWLGLYLCPVIWIIFAVFALFRF 147
>gnl|CDD|39609 KOG4408, KOG4408, KOG4408, Putative Mg2+ and Co2+ transporter CorD
[Inorganic ion transport and metabolism].
Length = 386
Score = 26.9 bits (59), Expect = 4.4
Identities = 27/126 (21%), Positives = 47/126 (37%), Gaps = 20/126 (15%)
Query: 64 KIFISGVHHSVSKDIL----LQKIPIRQDLAECCIDIGYKALNTEGNAQEAS--AWAEKN 117
K I G+ + +DIL + +P + +L + D+ + + AW E
Sbjct: 180 KYAIPGLDYVSHEDILPYTSSEAVPGQHELFDQFPDLARDPAAIPPFVIQDTLTAWQESK 239
Query: 118 NFHHVLIVTHDYHMPRT----------FL-ELQRINSTVQFIPYPI-ISHDLEENSSIFK 165
N H + D H T +L E ++ V + Y I I + L E S +
Sbjct: 240 N--HGWLPIRDVHRETTENIRVTVSTFYLGERSSVHPPVYWWRYCIRIENALPEKSVQLR 297
Query: 166 IKILRV 171
+ R+
Sbjct: 298 ERHWRI 303
>gnl|CDD|99799 cd06202, Nitric_oxide_synthase, The ferredoxin-reductase (FNR) like
C-terminal domain of the nitric oxide synthase (NOS)
fuses with a heme-containing N-terminal oxidase domain.
The reductase portion is similar in structure to NADPH
dependent cytochrome-450 reductase (CYPOR), having an
inserted connecting sub-domain within the FAD binding
portion of FNR. NOS differs from CYPOR in a requirement
for the cofactor tetrahydrobiopterin and unlike most
CYPOR is dimeric. Nitric oxide synthase produces nitric
oxide in the conversion of L-arginine to L-citruline.
NOS has been implicated in a variety of processes
including cytotoxicity, anti-inflamation,
neurotransmission, and vascular smooth muscle
relaxation..
Length = 406
Score = 25.8 bits (57), Expect = 9.7
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 22 FIRYVKQMHIPDHPSVSAIVVLTGEPIRIERAF 54
F+R H+P+ PSV I+V G I R+F
Sbjct: 232 FVRSAPSFHLPEDPSVPVIMVGPGTGIAPFRSF 264
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.328 0.142 0.420
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,542,674
Number of extensions: 133121
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 683
Number of HSP's successfully gapped: 36
Length of query: 207
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,340,536
Effective search space: 512183248
Effective search space used: 512183248
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: 55 (24.9 bits)