RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764508|ref|YP_003065363.2| hypothetical protein
CLIBASIA_04245 [Candidatus Liberibacter asiaticus str. psy62]
(242 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 = 110 bits (278), Expect = 3e-25
Identities = 49/167 (29%), Positives = 86/167 (51%), Gaps = 21/167 (12%)
Query: 69 IVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128
IV+LG G PS R+ LY++ +I+SGG G
Sbjct: 3 IVVLGGGVN--------GDGPSPILAERLDAAAELYRAGP----APKLIVSGGQGPGEGY 50
Query: 129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRS 188
+E+ L+E GV + I LE +S +T++NA+FS+ +++ ++++LV+SAYH+ R+
Sbjct: 51 SEAEAMARYLIELGVPAEAILLEDRSTNTYENARFSAELLRERGIRSVLLVTSAYHMPRA 110
Query: 189 QLYFQHFGINTK--ASCSDYLNAYYSIIPLSANFYLTELALKEYIGI 233
L F+ G++ + + +D+ LS+ L LAL+EY+G+
Sbjct: 111 LLIFRKAGLDVEVVPAPTDFY-------SLSSALRLLRLALREYLGL 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 = 110 bits (276), Expect = 5e-25
Identities = 47/165 (28%), Positives = 82/165 (49%), Gaps = 21/165 (12%)
Query: 69 IVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128
IV+LG G+ +R+ LY++ II+SGG +
Sbjct: 5 IVVLGGGSPA--------------LAARLDAAAELYRAGPA----PRIIVSGGAGGGEPV 46
Query: 129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRS 188
+E+ V L+E GV + I LE QS +T++NA+FS+ +++ + ++LV+SA+H++R+
Sbjct: 47 SEAEVMRRYLVELGVPAEAILLEPQSRNTYENARFSAELLRERGLRRVLLVTSAFHMRRA 106
Query: 189 QLYFQHFGINTKASCSDYLNAYYSIIPLSANFYLTELALKEYIGI 233
L F+ G +DY + P + L AL+EY+G+
Sbjct: 107 LLLFRRAGPEVVPVPADYP---TPLPPRALWLRLARAALREYLGL 148
>gnl|CDD|31623 COG1434, COG1434, Uncharacterized conserved protein [Function
unknown].
Length = 223
Score = 82.9 bits (204), Expect = 7e-17
Identities = 57/246 (23%), Positives = 100/246 (40%), Gaps = 31/246 (12%)
Query: 1 MLLSWIFLIVSYWHLLCQSIRKIFFMSCFMLLFSFIGWGIIPTILLKHLQFSYQRPLLSP 60
LL + ++ L + + + + ++L I+ LL+ L+ LL P
Sbjct: 4 TLLLLLVGLLLLSSLRFRKLIVLRILLLLIILL-LAALLILGGFLLRPLEARSAAALLLP 62
Query: 61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISG 120
+ IV+LG G R+ E RL K I+
Sbjct: 63 G---LADAIVVLGGG------------SRLTDHLIRLLEAARLAK----------ILPIS 97
Query: 121 GDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVS 180
G + G+ E L GV + I LE +S +T +NA+FS +++ +++ILV+
Sbjct: 98 GVLESGGVIEIQATRRYLENLGVPAERIILEDRSRNTVENARFSRRLLRTQGPESVILVT 157
Query: 181 SAYHLKRSQLYFQHFGIN-----TKASCSDYLNAYYSIIPLSANFYLTELALKEYIGILI 235
S YH+ R+ L F+ GI+ + L S++ L+ + AL+E +G+L
Sbjct: 158 SPYHMPRALLLFRKLGISVIPYPVGFLDRNILRLPLSLLALAEALLKSLRALREALGLLG 217
Query: 236 AYYRGN 241
+G
Sbjct: 218 YGLKGR 223
>gnl|CDD|30395 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
synthetase domain [Nucleotide transport and metabolism].
Length = 743
Score = 30.2 bits (68), Expect = 0.60
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 55 RPLLSPQWKKDGNIIVLLGNGTT 77
R +L+P+ KK G ++ LLG
Sbjct: 573 RKVLTPELKKAGLLLYLLGETKD 595
>gnl|CDD|36532 KOG1318, KOG1318, KOG1318, Helix loop helix transcription factor EB
[Transcription].
Length = 411
Score = 28.5 bits (63), Expect = 1.8
Identities = 15/65 (23%), Positives = 21/65 (32%), Gaps = 4/65 (6%)
Query: 138 LLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGI 197
S E DD+ ++L AQ S N Q N + S A +Y
Sbjct: 141 GFSSLGEMDDVISNIETLSASFPAQSVGSPAGNGQTANTLTSSGA----SLNVYPSEGQF 196
Query: 198 NTKAS 202
N +
Sbjct: 197 NVPMT 201
>gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance Protein)-like
transporters are involved in drug, peptide, and lipid
export. They belong to the subfamily C of the
ATP-binding cassette (ABC) superfamily of transport
proteins. The ABCC subfamily contains transporters with
a diverse functional spectrum that includes ion
transport, cell surface receptor, and toxin secretion
activities. The MRP-like family, simlar to all ABC
proteins, have a common four-domain core structure
constituted by two membrane-spanning domains, each
composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins..
Length = 171
Score = 27.7 bits (62), Expect = 3.3
Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 13/67 (19%)
Query: 117 IISGGDPQKHGLAESIVYNNKLL---ESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG 173
I+SGG Q+ +A +++ + +L E+ T +LD A ++ +G
Sbjct: 96 ILSGGQRQRIAIARALLRDPPILILDEA----------TSALDPETEALILEALRALAKG 145
Query: 174 KNIILVS 180
K +I+++
Sbjct: 146 KTVIVIA 152
>gnl|CDD|39429 KOG4228, KOG4228, KOG4228, Protein tyrosine phosphatase [Signal
transduction mechanisms].
Length = 1087
Score = 27.3 bits (60), Expect = 3.9
Identities = 23/75 (30%), Positives = 28/75 (37%), Gaps = 6/75 (8%)
Query: 149 KLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLN 208
K E +SL Q S+ +N Q KN AY R L I SDY+N
Sbjct: 544 KQEYESLPEGQFTWEHSNKKENKQ-KNRYENILAYDHSRVILPP----IEGDP-NSDYIN 597
Query: 209 AYYSIIPLSANFYLT 223
A Y N Y+
Sbjct: 598 ANYIDGYKEPNAYIA 612
>gnl|CDD|153093 cd04704, PLA2_bee_venom_like, PLA2_bee_venom_like: A sub-family of
Phospholipase A2, similar to bee venom PLA2. PLA2 is a
super-family of secretory and cytosolic enzymes; the
latter are either Ca dependent or Ca independent.
Enzymatically active PLA2 cleaves the sn-2 position of
the glycerol backbone of phospholipids; secreted PLA2s
have also been found to specifically bind to a variety
of soluble and membrane proteins in mammals, including
receptors. As a toxin, PLA2 is a potent presynaptic
neurotoxin which blocks nerve terminals by binding to
the nerve membrane and hydrolyzing stable membrane
lipids. The products of the hydrolysis cannot form
bilayers leading to a change in membrane conformation
and ultimately to a block in the release of
neurotransmitters. PLA2 may form dimers or oligomers.
Bee venom PLA2 has fewer conserved disulfide bridges
than most canonical PLA2s.
Length = 97
Score = 27.3 bits (61), Expect = 4.1
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128
+YS + K C++H HC IIS G+ K+GL
Sbjct: 17 NYSDLGAFRETDKCCREHD-HCPDIISAGE-YKYGL 50
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 26.7 bits (59), Expect = 5.9
Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 13/66 (19%)
Query: 118 ISGGDPQKHGLAESIVYNNKLL---ESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGK 174
+SGG Q+ LA +++ K+L E+ T +LD A ++++ +QG+
Sbjct: 610 LSGGQRQRLALARALLSKPKILLLDEA----------TSALDPETEAIILQNLLQILQGR 659
Query: 175 NIILVS 180
+I+++
Sbjct: 660 TVIIIA 665
>gnl|CDD|32772 COG2949, SanA, Uncharacterized membrane protein [Function unknown].
Length = 235
Score = 26.0 bits (57), Expect = 9.9
Identities = 22/119 (18%), Positives = 44/119 (36%), Gaps = 14/119 (11%)
Query: 95 SRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLET-- 152
RI + LYK+ K ++ GD E L+ +GV +I L+
Sbjct: 80 YRIDAAIALYKAGK-----VNYLLLSGDNATVSYNEPRTMRKDLIAAGVPAKNIFLDYAG 134
Query: 153 -QSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAY 210
++LD+ A+ K + +++ +H +R+ + GI+ +
Sbjct: 135 FRTLDSVVRAR------KVFGTNDFTIITQRFHCERALFIARQMGIDAICFAAPDPEGR 187
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
0.326 0.140 0.427
Gapped
Lambda K H
0.267 0.0636 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,045,015
Number of extensions: 162147
Number of successful extensions: 712
Number of sequences better than 10.0: 1
Number of HSP's gapped: 706
Number of HSP's successfully gapped: 39
Length of query: 242
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,297,318
Effective search space: 648895018
Effective search space used: 648895018
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: 56 (25.5 bits)