RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780547|ref|YP_003064960.1| OmpA/MotB [Candidatus
Liberibacter asiaticus str. psy62]
(160 letters)
>gnl|CDD|32711 COG2885, OmpA, Outer membrane protein and related
peptidoglycan-associated (lipo)proteins [Cell envelope
biogenesis, outer membrane].
Length = 190
Score = 102 bits (256), Expect = 3e-23
Identities = 38/110 (34%), Positives = 55/110 (50%), Gaps = 1/110 (0%)
Query: 41 QEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSI 99
++ + V FD S ++P L L +L+K+ L+EGH D GS +
Sbjct: 74 ARDIILNLPNDVLFDFDSSVLKPKAQATLDELAKYLKKNPITRILVEGHTDSTGSDEYNQ 133
Query: 100 ALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRA 149
AL RRA AV +Y V++G+ A R+ YG+E P E+ AKNRR
Sbjct: 134 ALSERRAEAVADYLVSQGVVADRISTVGYGEEKPIASNATEEGRAKNRRV 183
>gnl|CDD|143586 cd07185, OmpA_C-like, Peptidoglycan binding domains similar to the
C-terminal domain of outer-membrane protein OmpA.
OmpA-like domains (named after the C-terminal domain of
Escherichia coli OmpA protein) have been shown to
non-covalently associate with peptidoglycan, a network
of glycan chains composed of disaccharides, which are
crosslinked via short peptide bridges. Well-studied
members of this family include the Escherichia coli
outer membrane protein OmpA, the Escherichia coli
lipoprotein PAL, Neisseria meningitdis RmpM, which
interact with the outer membrane, as well as the
Escherichia coli motor protein MotB, and the Vibrio
flagellar motor proteins PomB and MotY, which interact
with the inner membrane.
Length = 106
Score = 101 bits (255), Expect = 7e-23
Identities = 37/104 (35%), Positives = 54/104 (51%), Gaps = 1/104 (0%)
Query: 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRRAYAV 109
+++FD S + P +L L L+K+ D IEGH D GS + L RRA AV
Sbjct: 3 TIYFDFGSAELTPEAKPLLDKLAEVLKKNPDAKIRIEGHTDSRGSDAYNQELSERRAEAV 62
Query: 110 FNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153
+Y V++G+ ASR+ YG+ P E+ AKNRR + +
Sbjct: 63 ADYLVSKGVDASRITAVGYGESRPIASNDTEEGRAKNRRVEIVI 106
>gnl|CDD|144333 pfam00691, OmpA, OmpA family. The Pfam entry also includes MotB
and related proteins which are not included in the
Prosite family.
Length = 97
Score = 76.3 bits (188), Expect = 3e-15
Identities = 34/97 (35%), Positives = 43/97 (44%), Gaps = 2/97 (2%)
Query: 53 FFDTSSYSIRPADIQVLSNLGSWLE--KHDCDFLIEGHADELGSRNSSIALGLRRAYAVF 110
FD S + + L L L+ + IEGH D GS + L RRA AV
Sbjct: 1 LFDPGSAELTAEARETLDRLAEVLKAPELKIAIKIEGHTDSRGSAKYNWELSARRAQAVA 60
Query: 111 NYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNR 147
NY V GI SR+ V YG+ P ++ AKNR
Sbjct: 61 NYLVNHGIPPSRISVEGYGESQPLASNDSDEGRAKNR 97
>gnl|CDD|31551 COG1360, MotB, Flagellar motor protein [Cell motility and
secretion].
Length = 244
Score = 51.9 bits (124), Expect = 8e-08
Identities = 31/111 (27%), Positives = 48/111 (43%), Gaps = 7/111 (6%)
Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHD-CDFLIEGHADEL---GSRNSSIALGLRR 105
DS+ F + S ++P +L + L + IEGH D + GS S+ L R
Sbjct: 132 DSLMFASGSAVVQPEFRDLLLKIAKLLADIPNGNIRIEGHTDNVPIKGSFYSNWELSAAR 191
Query: 106 AYAVFNYFVARG-ISASRMKVTSYGKEMPSVYGHDEDAY-AKNRRAIVFLK 154
A +V + G + A R+ V Y P + +D AKNRR + +
Sbjct: 192 AQSVVRVLINGGLVEAKRLSVVGYADTRP-LADNDTAEGRAKNRRVEILIL 241
>gnl|CDD|34136 COG4457, SrfB, Uncharacterized protein conserved in bacteria,
putative virulence factor [Function unknown].
Length = 1014
Score = 28.8 bits (64), Expect = 0.68
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 7/94 (7%)
Query: 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFN 111
V + + ++ + ++ ++G+ C LIE H DE N + L LR
Sbjct: 238 VKTVSDTLNVPAVPVDLVLDVGN---SRTCGILIEDHPDENDGLNQTYELELRDLSK--P 292
Query: 112 YFVARGISASRMKVTS--YGKEMPSVYGHDEDAY 143
+V SR++ +GKE SV DA+
Sbjct: 293 EYVYNDPFESRVEFAQAEFGKEHFSVESGRPDAF 326
>gnl|CDD|35801 KOG0581, KOG0581, KOG0581, Mitogen-activated protein kinase
kinase (MAP2K) [Signal transduction mechanisms].
Length = 364
Score = 26.8 bits (59), Expect = 2.9
Identities = 14/58 (24%), Positives = 22/58 (37%)
Query: 17 SISGIDNLDTKISSPDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGS 74
+S D L + S + N L + SS + I +D++ L LGS
Sbjct: 32 ILSARDTLPSTSESLELTDNSPPLSKISLSSSSANSELSEDDNGISLSDLERLGVLGS 89
>gnl|CDD|31696 COG1507, COG1507, Uncharacterized conserved protein [Function
unknown].
Length = 167
Score = 26.5 bits (58), Expect = 3.1
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 119 SASRMKVTSYGKEMPSVYGHDEDAYAKNRRA 149
+ASR++ T Y KEM G DE+ A RRA
Sbjct: 62 AASRLESTGYMKEMTERLGQDEELRAFYRRA 92
>gnl|CDD|30609 COG0260, PepB, Leucyl aminopeptidase [Amino acid transport and
metabolism].
Length = 485
Score = 26.0 bits (57), Expect = 4.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 48 VGDSVFFDTSSYSIRPAD 65
VG + FD+ SI+PA
Sbjct: 251 VGKGITFDSGGISIKPAA 268
>gnl|CDD|163641 cd07398, MPP_YbbF-LpxH, Escherichia coli YbbF/LpxH and related
proteins, metallophosphatase domain. YbbF/LpxH is an
Escherichia coli UDP-2,3-diacylglucosamine hydrolase
thought to catalyze the fourth step of lipid A
biosynthesis, in which a precursor
UDP-2,3-diacylglucosamine is hydrolyzed to yield
2,3-diacylglucosamine 1-phosphate and UMP. YbbF belongs
to the metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 217
Score = 25.9 bits (57), Expect = 5.3
Identities = 4/14 (28%), Positives = 6/14 (42%)
Query: 75 WLEKHDCDFLIEGH 88
+ D +I GH
Sbjct: 184 LARRKGVDGVICGH 197
>gnl|CDD|144468 pfam00883, Peptidase_M17, Cytosol aminopeptidase family, catalytic
domain. The two associated zinc ions and the active
site are entirely enclosed within the C-terminal
catalytic domain in leucine aminopeptidase.
Length = 312
Score = 25.3 bits (56), Expect = 7.3
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 48 VGDSVFFDTSSYSIRPAD 65
VG + FD+ SI+P
Sbjct: 84 VGKGITFDSGGISIKPGA 101
>gnl|CDD|146133 pfam03340, Pox_Rif, Poxvirus rifampicin resistance protein.
Length = 541
Score = 25.4 bits (56), Expect = 8.4
Identities = 11/39 (28%), Positives = 18/39 (46%)
Query: 28 ISSPDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADI 66
I S + ++ E+ +E F S + + S YSI D
Sbjct: 93 IESVNGIIWETGGEELFDSCRDNKIASKLSGYSIELNDF 131
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
0.318 0.132 0.372
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,800,125
Number of extensions: 84617
Number of successful extensions: 207
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 16
Length of query: 160
Length of database: 6,263,737
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,405,363
Effective search space: 325996862
Effective search space used: 325996862
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 (21.8 bits)
S2: 53 (24.2 bits)