RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780745|ref|YP_003065158.1| OstA family protein
[Candidatus Liberibacter asiaticus str. psy62]
(181 letters)
>gnl|CDD|163098 TIGR03002, outer_YhbN_LptA, lipopolysaccharide transport
periplasmic protein LptA. Members of this protein
family include LptA (previously called YhbN). It was
shown to be an essential protein in E. coli, implicated
in cell envelope integrity, and to play a role in the
delivery of LPS to the outer leaflet of the outer
membrane. It works with LptB (formerly yhbG), a homolog
of ABC transporter ATP-binding proteins, encoded by an
adjacent gene. Numerous homologs in other
Proteobacteria are found in a conserved location near
lipopolysaccharide inner core biosynthesis genes. This
family is related to organic solvent tolerance protein
(OstA), though distantly.
Length = 142
Score = 45.3 bits (108), Expect = 8e-06
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 42 NEKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNNTNR 90
+ IHI+AD + D F GNV +TQ ++ADK+ + N+
Sbjct: 7 EQPIHIEADSQTLDDKKGVVTFTGNVVITQGTLKIRADKVVVTRNDAGG 55
>gnl|CDD|179645 PRK03761, PRK03761, LPS assembly outer membrane complex protein
LptD; Provisional.
Length = 778
Score = 33.0 bits (76), Expect = 0.043
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 2/78 (2%)
Query: 45 IHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTIDYNNTNRDVSNKINRMDVERN 104
+ I+AD E A + GNV + Q + L AD++ + N + + +D N
Sbjct: 51 VTIEADHAEANYP-DDAVYTGNVDIKQGNSRLTADEVQLHQQE-NPGQAEPVRTVDALGN 108
Query: 105 IFIQSGEINVIASNGYVD 122
+ +I + + +
Sbjct: 109 VHYDDNQIILKGPKAWSN 126
>gnl|CDD|132313 TIGR03269, met_CoM_red_A2, methyl coenzyme M reductase system,
component A2. The enzyme that catalyzes the final step
in methanogenesis, methyl coenzyme M reductase, contains
alpha, beta, and gamma chains. In older literature, the
complex of alpha, beta, and gamma chains was termed
component C, while this single chain protein was termed
methyl coenzyme M reductase system component A2.
Length = 520
Score = 28.6 bits (64), Expect = 0.87
Identities = 11/47 (23%), Positives = 18/47 (38%)
Query: 38 KVLGNEKIHIKADMLEVKDAVQKAFFKGNVFMTQEDFSLQADKMTID 84
V G + D + D +++ K M Q F+L D +D
Sbjct: 83 PVCGGTLEPEEVDFWNLSDKLRRRIRKRIAIMLQRTFALYGDDTVLD 129
>gnl|CDD|129282 TIGR00178, monomer_idh, isocitrate dehydrogenase, NADP-dependent,
monomeric type. The monomeric type of isocitrate
dehydrogenase has been found so far in a small number of
species, including Azotobacter vinelandii,
Corynebacterium glutamicum, Rhodomicrobium vannielii,
and Neisseria meningitidis. It is NADP-specific.
Length = 741
Score = 27.2 bits (60), Expect = 2.8
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 9/61 (14%)
Query: 45 IHIKADMLEVKDAVQ-----KAFFKGNVFMTQEDFSLQADKMTIDYNNTNRDVSNKINRM 99
+H+KA M++V D + + F+K E ++ +D NN D+ KI +
Sbjct: 252 LHLKATMMKVSDPIMFGHAVREFYKDAFAKHAEVL----KQLGVDVNNGIGDLYAKIESL 307
Query: 100 D 100
Sbjct: 308 P 308
>gnl|CDD|184326 PRK13788, PRK13788, adenylosuccinate synthetase; Provisional.
Length = 404
Score = 27.1 bits (60), Expect = 2.9
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 120 YVDFQKRILVLNGDRADKVILKEKLNTFLGCK 151
Y D +R+ + GD D+ +L+E++ L K
Sbjct: 129 YSDRARRVGIRFGDLLDEAVLRERVERLLEAK 160
>gnl|CDD|162017 TIGR00744, ROK_glcA_fam, ROK family protein (putative glucokinase).
This alignment models one branch of the ROK superfamily
of proteins. The three members of the seed alignment for
this model all have experimental evidence for activity
as glucokinase, but the set of related proteins is
crowded with paralogs of different or unknown function.
Proteins scoring above the trusted_cutoff will show
strong similarity to at least one known glucokinase and
may be designated as putative glucokinases. However,
definitive identification of glucokinases should be done
only with extreme caution.
Length = 318
Score = 26.8 bits (59), Expect = 3.0
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 92 VSNKINRMDVERNIFIQSGEINVIASNGYVDFQKRIL--VLNGDRADKVILKEKLNTFLG 149
V + I + + + G I + G V+ Q+ + +N D + LKEK+ +G
Sbjct: 44 VDSFIQHIAKVGHEIVAIG----IGAPGPVNRQRGTVYFAVNLDWKQEP-LKEKVEARVG 98
Query: 150 CKLIVNIDTSFASL 163
++V D + A+L
Sbjct: 99 LPVVVENDANAAAL 112
>gnl|CDD|184881 PRK14887, PRK14887, KEOPS complex Pcc1-like subunit; Provisional.
Length = 84
Score = 26.0 bits (58), Expect = 5.7
Identities = 9/48 (18%), Positives = 21/48 (43%)
Query: 101 VERNIFIQSGEINVIASNGYVDFQKRILVLNGDRADKVILKEKLNTFL 148
+ R++ + G+ S + +V+ + D L+ LN++L
Sbjct: 21 IYRSVLPEHGDSQGERSKADLSLDGNTIVITIEAEDLSALRASLNSWL 68
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
0.323 0.137 0.378
Gapped
Lambda K H
0.267 0.0731 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,752,174
Number of extensions: 164695
Number of successful extensions: 320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 22
Length of query: 181
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 94
Effective length of database: 4,114,577
Effective search space: 386770238
Effective search space used: 386770238
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.6 bits)