RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9526
(113 letters)
>gnl|CDD|215130 PLN02217, PLN02217, probable pectinesterase/pectinesterase
inhibitor.
Length = 670
Score = 30.1 bits (67), Expect = 0.25
Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 7/76 (9%)
Query: 12 ASPPMSVVLASPQMSVVLASPPMSVVLASPPMSVVLASP--PMSVVLASPPISVVLASPP 69
SPP + + P + SP SPP S + + P S + S ASP
Sbjct: 597 TSPPAGHLGSPPATPSKIVSPS-----TSPPASHLGSPSTTPSSPESSIKVASTETASPE 651
Query: 70 MSVVLASPPMSVVLAS 85
S+ +AS SV + S
Sbjct: 652 SSIKVASTESSVSMVS 667
Score = 27.7 bits (61), Expect = 1.6
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 6/85 (7%)
Query: 22 SPQMSVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVVLASP--PMSVVLASPPM 79
SP V ++ P + L SPP + P + SPP S + + P S +
Sbjct: 588 SPSTVVAPSTSPPAGHLGSPPATPSKIVSPST----SPPASHLGSPSTTPSSPESSIKVA 643
Query: 80 SVVLASPPMSVNYSQNQMSAKAIAL 104
S ASP S+ + + S +++
Sbjct: 644 STETASPESSIKVASTESSVSMVSM 668
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 28.7 bits (65), Expect = 0.68
Identities = 14/83 (16%), Positives = 30/83 (36%), Gaps = 2/83 (2%)
Query: 26 SVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVVLASPPMSVVLASPPMSVVLAS 85
+ L P + A+P S + +PP + + PP S +P + + +
Sbjct: 362 AAPLPEPEVPPQSAAPAASA--QATAAPTAAVAPPQAPAVPPPPASAPQQAPAVPLPETT 419
Query: 86 PPMSVNYSQNQMSAKAIALVRAD 108
+ Q Q + A +++
Sbjct: 420 SQLLAARQQLQRAQGATKAKKSE 442
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 28.5 bits (64), Expect = 0.69
Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 8/82 (9%)
Query: 13 SP-PMSVVLASPQM-------SVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVV 64
SP P++V ASP+M + P V V P ++ V + + V
Sbjct: 823 SPMPLTVACASPEMASGKVWIRYPVVRPQDVQVEEQREAEEVQVQPVVAEVPVAAAVEPV 882
Query: 65 LASPPMSVVLASPPMSVVLASP 86
+++P + V VV+A P
Sbjct: 883 VSAPVVEAVAEVVEEPVVVAEP 904
>gnl|CDD|237018 PRK11905, PRK11905, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1208
Score = 27.5 bits (62), Expect = 1.4
Identities = 16/80 (20%), Positives = 26/80 (32%), Gaps = 1/80 (1%)
Query: 5 LPMSLILASPPMSVVLASPQMSVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVV 64
P +L + Q++ LA+ ++VV A ++ LA P V
Sbjct: 1077 HPRGRVLCVAD-TEEALLRQLAAALATGNVAVVAADSGLAAALADLPGLVAARIDWTQDW 1135
Query: 65 LASPPMSVVLASPPMSVVLA 84
A P + L A
Sbjct: 1136 EADDPFAGALLEGDAERARA 1155
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 26.6 bits (59), Expect = 3.0
Identities = 15/92 (16%), Positives = 28/92 (30%), Gaps = 6/92 (6%)
Query: 12 ASPPMSVVLASPQMSVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVVLASPPMS 71
P A+P + V + A+P + + P + +P + A+P
Sbjct: 378 KKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPA-- 435
Query: 72 VVLASPPMSVVLASPPMSVNYSQNQMSAKAIA 103
+ P + A +Q AI
Sbjct: 436 ----AAPAAAPAAVALAPAPPAQAAPETVAIP 463
>gnl|CDD|227889 COG5602, SIN3, Histone deacetylase complex, SIN3 component
[Chromatin structure and dynamics].
Length = 1163
Score = 26.4 bits (58), Expect = 3.8
Identities = 13/53 (24%), Positives = 20/53 (37%)
Query: 47 LASPPMSVVLASPPISVVLASPPMSVVLASPPMSVVLASPPMSVNYSQNQMSA 99
L P S + + P + + P S +P S P + SQ + SA
Sbjct: 201 LPQPNGSRLHVTTPQGPLSSPPVQSSYYVAPCNHDQRTSHPTLPSDSQPEPSA 253
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 25.7 bits (56), Expect = 6.3
Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)
Query: 31 SPPMSVVLASPPMSVVLASPPMSVVLASPPISVVLASP-PMSVVLASPPMSVVLASPPMS 89
+P + V+ P+ V S + + +S + S P V + M+ V A P++
Sbjct: 1126 APVIKSVVTQAPVVQVTISVAPAAPVLPAVVSPPVVSAAPAQSVATAVAMAPV-AEVPIA 1184
Query: 90 VNYSQNQMSAKAIALVRADQ 109
V Q+ ++A A Q
Sbjct: 1185 VPVQQSVDYMPSVAQAAAPQ 1204
>gnl|CDD|163497 TIGR03785, marine_sort_HK, proteobacterial dedicated sortase system
histidine kinase. This histidine kinase protein is
paired with an adjacent response regulator (TIGR03787)
gene. It co-occurs with a variant sortase enzyme
(TIGR03784), usually in the same gene neighborhood, in
proteobacterial species most of which are marine, and
with an LPXTG motif-containing sortase target conserved
protein (TIGR03788). Sortases and LPXTG proteins are far
more common in Gram-positive bacteria, where sortase
systems mediate attachment to the cell wall or
cross-linking of pilin structures. We give this
predicted sensor histidine kinase the gene symbol psdS,
for Proteobacterial Dedicated Sortase system Sensor
histidine kinase.
Length = 703
Score = 25.5 bits (56), Expect = 8.1
Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 2/75 (2%)
Query: 2 KFVLPMS-LILASPPMSVVLASPQMSVVLASPPMSVVLASPPMSVVLASPPMSVVLASPP 60
+++ P+ IL PP + Q S L + L P S SP V+ S
Sbjct: 317 QYLHPLYYKILTKPPADFI-DQLQDSQALEGSHIIKALQGQPASTWRLSPDSKAVILSAA 375
Query: 61 ISVVLASPPMSVVLA 75
+ + + + V+A
Sbjct: 376 YPIWIDTEVLGAVIA 390
>gnl|CDD|234652 PRK00128, ipk, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
Provisional.
Length = 286
Score = 25.1 bits (56), Expect = 8.4
Identities = 8/14 (57%), Positives = 8/14 (57%)
Query: 50 PPMSVVLASPPISV 63
P VVLA P I V
Sbjct: 162 PSCWVVLAKPDIGV 175
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 25.5 bits (56), Expect = 9.1
Identities = 18/98 (18%), Positives = 30/98 (30%), Gaps = 11/98 (11%)
Query: 12 ASPPMSVVLASPQMSVVLASPPMSVVLASPPMSVVLASPPMSVVLASPPISVVLASPPMS 71
A P + ASP P S A P P +SV +
Sbjct: 389 APQPSAAAAASPS-------PSQSSAAAQPSA----PQSATQPAGTPPTVSVDPPAAVPV 437
Query: 72 VVLASPPMSVVLASPPMSVNYSQNQMSAKAIALVRADQ 109
++ P +V A +++S+ + +R Q
Sbjct: 438 NPPSTAPQAVRPAQFKEEKKIPVSKVSSLGPSTLRPIQ 475
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.125 0.343
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,430,381
Number of extensions: 472162
Number of successful extensions: 777
Number of sequences better than 10.0: 1
Number of HSP's gapped: 657
Number of HSP's successfully gapped: 81
Length of query: 113
Length of database: 10,937,602
Length adjustment: 77
Effective length of query: 36
Effective length of database: 7,522,344
Effective search space: 270804384
Effective search space used: 270804384
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 (21.7 bits)
S2: 53 (24.2 bits)