RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6922
(197 letters)
>gnl|CDD|216278 pfam01066, CDP-OH_P_transf, CDP-alcohol phosphatidyltransferase.
All of these members have the ability to catalyze the
displacement of CMP from a CDP-alcohol by a second
alcohol with formation of a phosphodiester bond and
concomitant breaking of a phosphoride anhydride bond.
Length = 97
Score = 79.6 bits (197), Expect = 7e-20
Identities = 29/83 (34%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 34 IYTVPNLLCISRICLSPLLGYFIIHGQYSY-ALAFVVVAGITDGLDGWIARTYKNQSTKL 92
+ PNL+ + R+ L L ++ GQY A +++A + DGLDG +AR QS+ L
Sbjct: 1 LGITPNLITLLRLILGLLAALLLLLGQYLLLAALLLLLAVLLDGLDGKLARRT-GQSSPL 59
Query: 93 GSFLDPMADKVLIATLFLSLTYV 115
G+ LD +AD++ L L L +
Sbjct: 60 GALLDSVADRLSDVALLLGLLLI 82
>gnl|CDD|223632 COG0558, PgsA, Phosphatidylglycerophosphate synthase [Lipid
metabolism].
Length = 192
Score = 79.7 bits (197), Expect = 7e-19
Identities = 33/85 (38%), Positives = 49/85 (57%), Gaps = 4/85 (4%)
Query: 34 IYTVPNLLCISRICLSPLLGYFII---HGQYSYALAFVVVAGITDGLDGWIARTYKNQST 90
+ PN L + RI L PL ++ G AL ++A +TD LDG++AR + Q +
Sbjct: 11 LGNTPNQLTLLRIFLIPLFALLLLLPGLGLLLLALVLFLLAALTDALDGYLARKW-GQVS 69
Query: 91 KLGSFLDPMADKVLIATLFLSLTYV 115
+ G+FLDP+ADK+L A L L L +
Sbjct: 70 RFGAFLDPVADKLLDAALLLGLVAL 94
>gnl|CDD|178391 PLN02794, PLN02794, cardiolipin synthase.
Length = 341
Score = 78.7 bits (194), Expect = 1e-17
Identities = 48/159 (30%), Positives = 84/159 (52%), Gaps = 10/159 (6%)
Query: 29 GKKENIYTVPNLLCISRICLSPLLGYFIIHGQYSYALAFVVVAGITDGLDGWIARTYKNQ 88
G ++ +PNL+ ISR+ P++G+ I++ Y A + ++G +D LDG++AR
Sbjct: 136 GIVKSFVNLPNLISISRLVSGPVIGWMIVNEMYLSAFVGLAISGASDWLDGYVARKMGIN 195
Query: 89 STKLGSFLDPMADKVLIATLFLSLTYVELIPSKF------KNQGNICGKVEPFTTLVDIR 142
S +GS+LDP+ADKVLI + L++ +L+ ++ + G V + + +
Sbjct: 196 SV-VGSYLDPLADKVLIGCVALAMVEKDLLHPGLVGLVVLRDVALVGGAVYKRASSLGWK 254
Query: 143 --TLSRYFDVTLVTAQ-LAPTFISKCNTSVQLCLTFGTL 178
+ S +F++ + + P FISK NT QL L L
Sbjct: 255 WNSWSDFFNLDGTRPEKVEPLFISKVNTVFQLMLVAAAL 293
>gnl|CDD|233024 TIGR00560, pgsA, CDP-diacylglycerol--glycerol-3-phosphate
3-phosphatidyltransferase. Alternate names:
phosphatidylglycerophosphate synthase; glycerophosphate
phosphatidyltransferase; PGP synthase. A number of
related enzymes are quite similar in both sequence and
catalytic activity, including Saccharamyces cerevisiae
YDL142c, now known to be a cardiolipin synthase. There
may be problems with incorrect transitive annotation of
near homologs as authentic
CDP-diacylglycerol--glycerol-3-phosphate
3-phosphatidyltransferase [Fatty acid and phospholipid
metabolism, Biosynthesis].
Length = 182
Score = 64.3 bits (157), Expect = 4e-13
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 7/92 (7%)
Query: 37 VPNLLCISRICLSPLLGYFIIHGQYSYALAF------VVVAGITDGLDGWIARTYKNQST 90
+PN L + RI P+ F + ++ + A +TD LDG++AR + NQ +
Sbjct: 3 IPNWLTLFRIIALPIFILFFLENVLPIQVSPFIGALLFIFAAVTDWLDGYLARKW-NQVS 61
Query: 91 KLGSFLDPMADKVLIATLFLSLTYVELIPSKF 122
G FLDP+ADKVL+ + + L Y +P+ F
Sbjct: 62 NFGKFLDPLADKVLVLAVLIILVYHGYVPAWF 93
>gnl|CDD|182763 PRK10832, PRK10832, phosphatidylglycerophosphate synthetase;
Provisional.
Length = 182
Score = 59.1 bits (143), Expect = 4e-11
Identities = 29/76 (38%), Positives = 48/76 (63%), Gaps = 4/76 (5%)
Query: 35 YTVPNLLCISRICLSP--LLGYFIIHGQYSYALAFV-VVAGITDGLDGWIARTYKNQSTK 91
+ +P LL + R+ L P +L +++ + A + VA +TD DG++AR + QST+
Sbjct: 3 FNIPTLLTLFRVILIPFFVLVFYLPFTWAPFVCALIFCVAAVTDWFDGFLARRWN-QSTR 61
Query: 92 LGSFLDPMADKVLIAT 107
G+FLDP+ADKV++A
Sbjct: 62 FGAFLDPVADKVMVAI 77
>gnl|CDD|224104 COG1183, PssA, Phosphatidylserine synthase [Lipid metabolism].
Length = 234
Score = 56.9 bits (138), Expect = 4e-10
Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 33 NIYTVPNLLCISRICLSPLLGYFIIHGQYSYALAFVVVAGITDGLDGWIARTYKNQSTKL 92
+Y +PNL+ + L L + G++ AL +++A I DGLDG +AR +S
Sbjct: 7 RLYLLPNLITALGLFLGLLSIVAALEGRFEAALLLILLALILDGLDGRVARKLNAKS-AF 65
Query: 93 GSFLDPMADKV 103
G+ LD +AD V
Sbjct: 66 GAELDSLADLV 76
>gnl|CDD|166199 PLN02558, PLN02558, CDP-diacylglycerol-glycerol-3-phosphate/
3-phosphatidyltransferase.
Length = 203
Score = 50.4 bits (120), Expect = 7e-08
Identities = 29/82 (35%), Positives = 47/82 (57%), Gaps = 4/82 (4%)
Query: 34 IYTVPNLLCISRICLSPLL-GYFIIHGQY--SYALAFVVVAGITDGLDGWIARTYKNQST 90
+ T+P +L + R+ PLL F + + + + + A ITD LDG++AR K T
Sbjct: 8 VLTLPTVLTLGRVAAVPLLVATFYVDSWWGRTATTSIFIAAAITDWLDGYLARKMK-LGT 66
Query: 91 KLGSFLDPMADKVLIATLFLSL 112
G+FLDP+ADK+++A + L
Sbjct: 67 AFGAFLDPVADKLMVAAALILL 88
>gnl|CDD|211940 TIGR04217, archae_ser_T, archaetidylserine synthase. The activity
CDP-2,3-di-O-geranylgeranyl-sn-glycerol:L-serine
O-archaetidyltransferase (archaetidylserine synthase)
was demonstrated experimentally in Methanothermobacter
thermautotrophicus. Members represent an exception
within the broader family (TIGR00473) of
CDP-diacylglycerol-serine O-phosphatidyltransferases.
Length = 221
Score = 42.0 bits (99), Expect = 5e-05
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 37 VPNLLCISRICLSPLLGYFIIHGQYSYALAFVVVAGITDGLDGWIARTYKNQSTKLGSFL 96
+P+L+ + + G + A +++A + DG DG+IAR K S +LG L
Sbjct: 9 LPDLVSLLNAIFGIGAIFAAFSGSFGLAFVLILLAAVADGADGYIARRIK--SGELGEQL 66
Query: 97 DPMADKV 103
D +AD V
Sbjct: 67 DSLADAV 73
>gnl|CDD|232991 TIGR00473, pssA, CDP-diacylglycerol--serine
O-phosphatidyltransferase. This enzyme,
CDP-diacylglycerol--serine O-phosphatidyltransferase, is
involved in phospholipid biosynthesis catalyzing the
reaction CDP-diacylglycerol + L-serine = CMP +
L-1-phosphatidylserine. Members of this family do not
bear any significant sequence similarity to the
corresponding E.coli protein [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 151
Score = 36.6 bits (85), Expect = 0.002
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 48 LSPLLGYFIIH----GQYSYALAFVVVAGITDGLDGWIARTYKNQSTKLGSFLDPMADKV 103
L+ G+ I A ++++ D LDG +AR N+ + G LD +AD V
Sbjct: 3 LNAFSGFLSILSLLRYTIVRACFLILLSMFFDFLDGRVARK-TNRVSDFGKELDSLADVV 61
>gnl|CDD|235573 PRK05710, PRK05710, glutamyl-Q tRNA(Asp) synthetase; Reviewed.
Length = 299
Score = 29.4 bits (67), Expect = 0.97
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 11/37 (29%)
Query: 52 LGYFIIH---GQYSYALAFVVV----AGITD---GLD 78
+G F++ G ++Y LA VVV G+T G D
Sbjct: 166 VGDFVLRRADGLFAYQLA-VVVDDALQGVTHVVRGAD 201
>gnl|CDD|224727 COG1814, COG1814, Uncharacterized membrane protein [Function
unknown].
Length = 229
Score = 28.1 bits (63), Expect = 2.3
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 9/68 (13%)
Query: 50 PLLGYFIIHGQYSYALAFVVVAGITDGLDGWIARTYKNQSTKL--GSFLDPMADKVLIAT 107
PLL +F + S +A +++A + + G + +L S + VL+
Sbjct: 160 PLLPFFFLPDVLSALIASIILALLALAILGAV-------LARLSGASIAKSILRMVLLGL 212
Query: 108 LFLSLTYV 115
L LTY+
Sbjct: 213 LAALLTYL 220
>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly
in prokaryotes. Ribonuclease H (RNase H) is classified
into two evolutionarily unrelated families, type 1
(prokaryotic RNase HI, eukaryotic RNase H1 and viral
RNase H) and type 2 (prokaryotic RNase HII and HIII,
and eukaryotic RNase H2). RNase H is an endonuclease
that cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner. RNase H is involved in
DNA replication, repair and transcription. RNase H is
widely present in various organisms, including
bacteria, archaea and eukaryotes and most prokaryotic
and eukaryotic genomes contain multiple RNase H genes.
Despite the lack of amino acid sequence homology, Type
1 and type 2 RNase H share a main-chain fold and steric
configurations of the four acidic active-site (DEDD),
residues and have the same catalytic mechanism and
functions in cells. One of the important functions of
RNase H is to remove Okazaki fragments during DNA
replication. Prokaryotic RNase H varies greatly in
domain structures and substrate specificities.
Prokaryotes and some single-cell eukaryotes do not
require RNase H for viability.
Length = 139
Score = 27.5 bits (62), Expect = 2.8
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 69 VVAGITDGLDGWIARTYKNQSTK 91
V+ GIT + GW +K K
Sbjct: 71 VINGITKWIHGWKKNGWKTADGK 93
>gnl|CDD|203146 pfam04995, CcmD, Heme exporter protein D (CcmD). The CcmD
protein is part of a C-type cytochrome biogenesis
operon. The exact function of this protein is
uncertain. It has been proposed that CcmC, CcmD and
CcmE interact directly with each other, establishing a
cytoplasm to periplasm haem delivery pathway for
cytochrome c maturation. These proteins contain a
predicted transmembrane helix.
Length = 46
Score = 25.8 bits (58), Expect = 3.1
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 7/34 (20%)
Query: 58 HGQY---SYALAFVVVAGITDGLDGWIARTYKNQ 88
+ Y SY + +V+AG+ W R +
Sbjct: 3 YAFYVWSSYGITLLVLAGLI----VWSLRRRRRL 32
>gnl|CDD|165287 PHA02984, PHA02984, hypothetical protein; Provisional.
Length = 286
Score = 27.4 bits (61), Expect = 4.4
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 8/52 (15%)
Query: 3 EKMEEVIELNNFPSQDYQAYYGECGTGKKENIYTVPNLLCISRICLSPLLGY 54
+E++I LN YY KK NI + +LL I + + Y
Sbjct: 189 TLLEDIIILNG-------RYYNSNSM-KKVNIINIKSLLTKYSIKQNNFIDY 232
>gnl|CDD|223020 PHA03246, PHA03246, large tegument protein UL36; Provisional.
Length = 3095
Score = 27.2 bits (60), Expect = 7.6
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 79 GWIARTYKNQSTKLGSFLDPMADKVLIATLFLSLTYVELIPSKFKNQGNICGKVEPFTTL 138
G I Y++++ L +FLD M + I K +C K+ +L
Sbjct: 1856 GLIDSKYRDRTVVLDAFLDSMKE----------------IEDTQKQMEILCSKIPLTFSL 1899
Query: 139 VDIRTLSRYFD 149
D+R +S FD
Sbjct: 1900 NDLRAISSQFD 1910
>gnl|CDD|237565 PRK13934, PRK13934, stationary phase survival protein SurE;
Provisional.
Length = 266
Score = 26.7 bits (59), Expect = 9.4
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 6/36 (16%)
Query: 144 LSRYFDVTLVTAQLAPTFISKCNTSVQLCLTFGTLG 179
L R +D+ L L NTS+Q+ L+ GTLG
Sbjct: 81 LGRKYDLVLSGINLGD------NTSLQVILSSGTLG 110
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
0.322 0.138 0.415
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,932,167
Number of extensions: 910784
Number of successful extensions: 671
Number of sequences better than 10.0: 1
Number of HSP's gapped: 662
Number of HSP's successfully gapped: 28
Length of query: 197
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 105
Effective length of database: 6,857,034
Effective search space: 719988570
Effective search space used: 719988570
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.3 bits)