RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5633
(198 letters)
>gnl|CDD|217505 pfam03348, Serinc, Serine incorporator (Serinc). This is a family
of eukaryotic membrane proteins which incorporate serine
into membranes and facilitate the synthesis of the
serine-derived lipids phosphatidylserine and
sphingolipid. Members of this family contain 11
transmembrane domains and form intracellular complexes
with key enzymes involved in serine and sphingolipid
biosynthesis.
Length = 428
Score = 229 bits (585), Expect = 5e-74
Identities = 103/194 (53%), Positives = 134/194 (69%), Gaps = 20/194 (10%)
Query: 10 ACCCGSMACSL-CSCCTNGKSSTLTRIMYAVMLLVGTIIACITLAPGLQDFLRKV--PFC 66
ACCCGS ACSL CSCC + K+ST TRI YA++LL+ +I++ I L+PG+ L+K FC
Sbjct: 1 ACCCGSAACSLCCSCCPSIKNSTSTRIAYALILLLNSIVSWIMLSPGVIKKLKKKIPGFC 60
Query: 67 SESQSIAQSMGVVGSIDCQA--VVGYMAVYRICFGMGVFFLIMALMMIGVKSSRDNRAAI 124
+DC VGY AVYR+CF + +FFLI+AL+M+GVKSS+D RAAI
Sbjct: 61 G--------------VDCPDSECVGYSAVYRVCFALALFFLILALLMLGVKSSKDPRAAI 106
Query: 125 QNGMWGMKYVLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLVLLVDFAHTWAE 184
QNG W K +L+I +++ AFFIP + F MYIG++G F+FILIQL+LLVDFAH+WAE
Sbjct: 107 QNGFWFFKILLLIGLIVGAFFIP-NGFFFFVWMYIGVIGSFLFILIQLILLVDFAHSWAE 165
Query: 185 VWVSNYEETESRSW 198
WV YE+ SR W
Sbjct: 166 SWVEKYEDGNSRLW 179
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 33.7 bits (78), Expect = 0.048
Identities = 29/155 (18%), Positives = 56/155 (36%), Gaps = 26/155 (16%)
Query: 28 KSSTLTRIMYAVMLL-VGTIIACI--------TLAPGLQDFLRKVPFCSESQSIAQSMGV 78
KS L R++ ++ L + TII + +L L ++P
Sbjct: 385 KSEGLKRLLKILIYLGISTIIWGLLTGSFFGFSLPIFLPGGYLELP------------EG 432
Query: 79 VGSIDCQAVVGYMAVYRICFGMGVFFLIMAL---MMIGVKSSRDNRAAIQNGMWGMKYVL 135
S+ M + I +GV L + L + V+ A + W + +
Sbjct: 433 YPSLS--TENDVMTILIISLLIGVIHLFLGLLLGFINNVRKGDYKDAFLAQLGWLLILLG 490
Query: 136 VILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILI 170
++LIV+ F + + ++GG V I++
Sbjct: 491 ILLIVLGGFGLVVGLGPLGLIGKYLIIGGVVLIIL 525
>gnl|CDD|216181 pfam00902, TatC, Sec-independent protein translocase protein
(TatC). The bacterial Tat system has a remarkable
ability to transport folded proteins even enzyme
complexes across the cytoplasmic membrane. It is
structurally and mechanistically similar to the Delta
pH-driven thylakoidal protein import pathway. A
functional Tat system or Delta pH-dependent pathway
requires three integral membrane proteins: TatA/Tha4,
TatB/Hcf106 and TatC/cpTatC. The TatC protein is
essential for the function of both pathways. It might be
involved in twin-arginine signal peptide recognition,
protein translocation and proton translocation. Sequence
analysis predicts that TatC contains six transmembrane
helices (TMHs), and experimental data confirmed that N-
and C-termini of TatC or cpTatC are exposed to the
cytoplasmic or stromal face of the membrane. The
cytoplasmic N-terminus and the first cytoplasmic loop
region of the Escherichia coli TatC protein are
essential for protein export. At least two TatC
molecules co-exist within each Tat translocon.
Length = 212
Score = 30.5 bits (70), Expect = 0.43
Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 18/72 (25%)
Query: 93 VYRICFGMGVFF----LIMALMMIGVKSS---RDNRAAIQNGMWGMKYVLVILIVIAAFF 145
V R+ G+ F +++ L +G+ + R NR +Y +V++ +IAA
Sbjct: 149 VLRLLLAFGLLFELPVILVLLAKLGIVTPEFLRKNR----------RYAIVLIFIIAAII 198
Query: 146 IPADSPFGTTMM 157
P D ++
Sbjct: 199 TPPD-VISQLLL 209
>gnl|CDD|223876 COG0805, TatC, Sec-independent protein secretion pathway component
TatC [Intracellular trafficking and secretion].
Length = 255
Score = 30.3 bits (69), Expect = 0.46
Identities = 23/115 (20%), Positives = 44/115 (38%), Gaps = 21/115 (18%)
Query: 70 QSIAQSMGVVGSIDCQAVVGYMAVYRICFGMGVFF----LIMALMMIGVKSS---RDNRA 122
S A GV ++ + ++ + FG V F +I+ L +G+ + + R
Sbjct: 141 LSFAAPDGVSPALSISKYLSFVLTLLLAFG--VAFELPVVIVLLTRLGIVTPETLKKKR- 197
Query: 123 AIQNGMWGMKYVLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLVLLVD 177
+Y +V VIAA P D ++ I ++ + I + V+
Sbjct: 198 ---------RYAIVAAFVIAAIITPPD-VLSQILLAIPLI-LLYELSILISRFVE 241
>gnl|CDD|235040 PRK02463, PRK02463, OxaA-like protein precursor; Provisional.
Length = 307
Score = 30.5 bits (69), Expect = 0.48
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 6/46 (13%)
Query: 128 MWGMKYVLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLV 173
M M Y++ I++V+ +F PA G + ++ VGGF I+ QL+
Sbjct: 207 MKAMMYMMPIMMVVFSFSSPA----GVGLYWL--VGGFFSIIQQLI 246
>gnl|CDD|233202 TIGR00945, tatC, Twin arginine targeting (Tat) protein translocase
TatC. This model represents the TatC translocase
component of the Sec-independent protein translocation
system. This system is responsible for translocation of
folded proteins, often with bound cofactors across the
periplasmic membrane. A related model (TIGR01912)
represents the archaeal clade of this family. TatC is
often found in a gene cluster with the two other
components of the system, TatA/E (TIGR01411) and TatB
(TIGR01410). A model also exists for the Twin-arginine
signal sequence (TIGR01409) [Protein fate, Protein and
peptide secretion and trafficking].
Length = 215
Score = 29.1 bits (66), Expect = 1.3
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 12/75 (16%)
Query: 93 VYRICFGMGVFF----LIMALMMIGVKSSRDNRAAIQNGMWGMKYVLVILIVIAAFFIPA 148
V ++ F GV F L + L +G+ + R+ +YV+V VI A P
Sbjct: 147 VLKLLFSFGVAFQVPVLQVLLGRLGIVTYEQLRSK-------RRYVIVGAFVIGAILTPP 199
Query: 149 DSPFGTTMMYIGMVG 163
D P ++ I ++
Sbjct: 200 D-PLSQILLAIPLLL 213
>gnl|CDD|171463 PRK12392, PRK12392, bacteriochlorophyll c synthase; Provisional.
Length = 331
Score = 28.9 bits (65), Expect = 1.9
Identities = 37/160 (23%), Positives = 67/160 (41%), Gaps = 26/160 (16%)
Query: 34 RIMYAVMLLVGTIIACITLAPGLQDFLRKVPFCSESQSIAQSMGVVGSIDCQAVVGYMAV 93
++ +L G +A I AP L+ L+K S + ++ S G + + A+ +
Sbjct: 124 GMVIISSILAGLFVAYIYSAPPLK--LKKNILTS-APAVGFSYGFITFLSANALFSDIRP 180
Query: 94 YRICFGMGVFFLIMAL-MMIGVKSSRDNRAAIQNGMWGMKYVLVIL----IVIAAFFIPA 148
+ FF+ +AL +M KS ++ G+K + V++ + +F I
Sbjct: 181 EVVWLAGLNFFMAIALIIMNDFKSVEGDKEG------GLKSLTVMIGAKNTFLVSFII-I 233
Query: 149 DSPFG-----------TTMMYIGMVGGFVFILIQLVLLVD 177
D F T +MY +VG + I+IQ+ L D
Sbjct: 234 DLVFAVFAWLAWSWGFTVLMYFILVGLVLNIVIQIQLYRD 273
>gnl|CDD|132552 TIGR03513, GldL_gliding, gliding motility-associated protein GldL.
This protein family, GldL, is named for the member from
Flavobacterium johnsoniae, which is required for a type
of rapid gliding motility found in certain members of
the Bacteriodetes. However, members are found also in
several members of the Bacteriodetes that appear not to
be motile [Cellular processes, Chemotaxis and motility].
Length = 202
Score = 28.3 bits (63), Expect = 2.3
Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 124 IQNGMWGMKYVLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLVLLVDFAHTWA 183
+ N ++G +VIL A F P G M+++G++ + I + W
Sbjct: 3 VMNIVYGWGAAVVIL---GALFKIMHWPMGNPMLFVGLITEALIFAISAFEKPADEYDWE 59
Query: 184 EVW 186
V+
Sbjct: 60 RVY 62
>gnl|CDD|223940 COG1008, NuoM, NADH:ubiquinone oxidoreductase subunit 4 (chain M)
[Energy production and conversion].
Length = 497
Score = 28.3 bits (64), Expect = 2.7
Identities = 12/51 (23%), Positives = 21/51 (41%)
Query: 128 MWGMKYVLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLVLLVDF 178
+ + +L+ L +I A I G +I +V +L+ L L F
Sbjct: 2 SFPLLSLLIFLPLIGALLILLIPDNGKFARWIALVVSLATLLLSLYLFAGF 52
>gnl|CDD|217786 pfam03907, Spo7, Spo7-like protein. S. cerevisiae Spo7 has an
unknown function, but has a role in formation of a
spherical nucleus and meiotic division.
Length = 168
Score = 27.7 bits (62), Expect = 2.8
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 129 WGMKYVLVILIVIAAFFIPA----DSPFGTTMMYIGMVGGFVFILIQLVL 174
+ L +L IAAFF S ++ + + +F ++ L+L
Sbjct: 29 RQFTFFLSLLAGIAAFFFYELYFRPSEDSKGLVRMTLKFCLIFGVVTLLL 78
>gnl|CDD|233136 TIGR00805, oat, sodium-independent organic anion transporter. The
Organo Anion Transporter (OAT) Family (TC
2.A.60)Proteins of the OAT family catalyze the
Na+-independent facilitated transport of organic anions
such as bromosulfobromophthalein and prostaglandins as
well as conjugated and unconjugated bile acids
(taurocholate and cholate, respectively). These
transporters have been characterized in mammals, but
homologues are present in C. elegans and A. thaliana.
Some of the mammalian proteins exhibit a high degree of
tissue specificity. For example, the rat OAT is found at
high levels in liver and kidney and at lower levels in
other tissues. These proteins possess 10-12 putative
a-helical transmembrane spanners. They may catalyze
electrogenic anion uniport or anion exchange.
Length = 633
Score = 28.5 bits (64), Expect = 2.9
Identities = 24/85 (28%), Positives = 34/85 (40%), Gaps = 14/85 (16%)
Query: 21 CSC-CTNGKSSTL---------TRIMYA-VMLLVGTIIACITLAPGLQDFLRKVPFCSES 69
CSC T G SS T ++Y ++ + + IA IT P LR V S
Sbjct: 494 CSCVQTPGNSSAKKGLCNPSCATSLLYFLILFIPLSFIAFITAVPLYMVLLRVVNPEERS 553
Query: 70 QSI---AQSMGVVGSIDCQAVVGYM 91
+I M V G+I + G +
Sbjct: 554 LAIGLQWLCMRVFGTIPAPILFGLL 578
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 28.1 bits (63), Expect = 3.9
Identities = 19/95 (20%), Positives = 40/95 (42%), Gaps = 5/95 (5%)
Query: 87 VVGYMAVYRICFGMGVFFLIMALM--MIGVKSSRDNRAAIQNG-MWGMKYVLVILIVIAA 143
+ + + + +GV L + L+ I S D + AI +W + + ++L+++
Sbjct: 452 GLLFSNILILSLLIGVLHLSLGLLLGFINRVRSGDIKGAILPQLLWLLIILGLLLLILGY 511
Query: 144 FFIPAD--SPFGTTMMYIGMVGGFVFILIQLVLLV 176
+ + G G++G V LI + LV
Sbjct: 512 KWSVPELLGMVGAMFGAFGILGLLVVGLILVPGLV 546
>gnl|CDD|221848 pfam12911, OppC_N, N-terminal TM domain of oligopeptide transport
permease C. Oligopeptide permeases (Opp) have been
identified in numerous gram-negative and -positive
bacteria. These transport systems belong to the
superfamily of highly conserved ATP-binding cassette
transporters. Typically, Opp importers comprise a
complex of five proteins. The oligopeptide-binding
protein OppA is responsible for the capture of peptides
from the external medium. Two integral highly
hydrophobic membrane spanning proteins, OppB and OppC,
form a channel through the membrane used for peptide
translocation. This N-terminal domain appears to be the
first TM domain of the molecule.
Length = 55
Score = 25.6 bits (57), Expect = 4.8
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 6/36 (16%)
Query: 120 NRAAIQNGMWGMKYVLVILIVIAAFFIPADSPFGTT 155
N+ A + G+ V++IL+++ A F P SP+
Sbjct: 15 NKLA----VVGL--VILILLILLAIFAPLISPYYDQ 44
>gnl|CDD|147570 pfam05458, Siva, Cd27 binding protein (Siva). Siva binds to the
CD27 cytoplasmic tail. It has a DD homology region, a
box-B-like ring finger, and a zinc finger-like domain.
Overexpression of Siva in various cell lines induces
apoptosis, suggesting an important role for Siva in the
CD27-transduced apoptotic pathway. Siva-1 binds to and
inhibits BCL-X(L)-mediated protection against UV
radiation-induced apoptosis. Indeed, the unique
amphipathic helical region (SAH) present in Siva-1 is
required for its binding to BCL-X(L) and sensitising
cells to UV radiation. Natural complexes of
Siva-1/BCL-X(L) are detected in HUT78 and murine
thymocyte, suggesting a potential role for Siva-1 in
regulating T cell homeostasis. This family contains both
Siva-1 and the shorter Siva-2 lacking the sequence coded
by exon 2. It has been suggested that Siva-2 could
regulate the function of Siva-1.
Length = 175
Score = 26.8 bits (59), Expect = 6.3
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 2 ALCSAAQMAC-CCGSMACSLCS 22
A C C C S+ACSLC+
Sbjct: 133 AACGQCVRTCSGCSSLACSLCT 154
>gnl|CDD|216735 pfam01841, Transglut_core, Transglutaminase-like superfamily. This
family includes animal transglutaminases and other
bacterial proteins of unknown function. Sequence
conservation in this superfamily primarily involves
three motifs that centre around conserved cysteine,
histidine, and aspartate residues that form the
catalytic triad in the structurally characterized
transglutaminase, the human blood clotting factor
XIIIa'. On the basis of the experimentally demonstrated
activity of the Methanobacterium phage pseudomurein
endoisopeptidase, it is proposed that many, if not all,
microbial homologues of the transglutaminases are
proteases and that the eukaryotic transglutaminases have
evolved from an ancestral protease.
Length = 108
Score = 25.8 bits (57), Expect = 7.7
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 179 AHTWAEVWVSNY 190
AH W EV++ Y
Sbjct: 90 AHAWVEVYLPGY 101
>gnl|CDD|220795 pfam10520, Kua-UEV1_localn, Kua-ubiquitin conjugating enzyme hybrid
localisation domain. This domain is part of the
transcript of the fusion of two genes, the UEV1, an
enzymatically inactive variant of the E2
ubiquitin-conjugating enzymes that regulate
non-canonical elongation of ubiquitin chains, and Kua,
an otherwise unknown gene. UEV1A is a nuclear protein,
whereas both Kua and Kua-UEV localise to cytoplasmic
structures, indicating that the addition of a Kua domain
to UEV confers new biological properties. UEV1-Kua
carries the B domain with its characteristic double
histidine motif, and it is probably this domain which
determines the cytoplasmic localisation. It is
postulated that this hybrid transcript could
preferentially direct the variant polyubiquitination of
substrates closely associated with the cytoplasmic face
of the endoplasmic reticulum, possibly, although not
necessarily, in conjunction with membrane-bound
ubiquitin-conjugating enzymes.
Length = 178
Score = 26.2 bits (58), Expect = 9.4
Identities = 9/50 (18%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 134 VLVILIVIAAFFIPADSPFGTTMMYIGMVGGFVFILIQLVLLVDFAHTWA 183
+ ++ I A + ++P + + Y F+ V L + H W+
Sbjct: 58 ASIPVLAILAATLATNAP--SALTYWYGWHVFLLTFAIFVALTNQIHKWS 105
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
0.332 0.139 0.446
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,798,580
Number of extensions: 935089
Number of successful extensions: 2417
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2358
Number of HSP's successfully gapped: 257
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 56 (25.4 bits)