RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13205
(267 letters)
>gnl|CDD|227598 COG5273, COG5273, Uncharacterized protein containing DHHC-type Zn
finger [General function prediction only].
Length = 309
Score = 110 bits (277), Expect = 9e-29
Identities = 51/195 (26%), Positives = 76/195 (38%), Gaps = 31/195 (15%)
Query: 17 WFLLIGTTSLFYYYPCKYYLTHHPWVIPIQAVITFFVLANFTLATFMDPGAIPKVNGIT- 75
+ LL+ SL VI ++ L DPG + + ++
Sbjct: 43 YTLLVIVKSLSLVVLFIIL----------FIVILVLASFSYLLLLVSDPGYLGENITLSG 92
Query: 76 --------------VRMKWCVTCKFYRPPRCSHCSVCNYCIETFDHHCPWVNNCIGRRNY 121
+C TC Y+PPR HCS+CN C+ FDHHCPW+NNC+G RNY
Sbjct: 93 YRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNY 152
Query: 122 RYFFFFLVTLSLHMASIFALCLIY---TFDHH---CPWVNNCIGRRNYRYFFFFLVTLSL 175
R+F+ FL+ L + Y F + I + FF++T L
Sbjct: 153 RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLIFGCSLLGVVFFIITTLL 212
Query: 176 HMASIFALCLIYVMI 190
+ I+ + I
Sbjct: 213 LLFLIYLILNNLTTI 227
>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase. This family
includes the well known DHHC zinc binding domain as well
as three of the four conserved transmembrane regions
found in this family of palmitoyltransferase enzymes.
Length = 167
Score = 105 bits (264), Expect = 3e-28
Identities = 56/201 (27%), Positives = 79/201 (39%), Gaps = 53/201 (26%)
Query: 57 FTLATFMDPGAIPKV----------------NGITVRMKWCVTCKFYRPPRCSHCSVCNY 100
+ F DPG +PK +K+C TC +PPR HC VCN
Sbjct: 4 YFKTIFTDPGYVPKNPTEKEQEKQPDEESEEGDEEDELKFCSTCNIIKPPRSHHCRVCNR 63
Query: 101 CIETFDHHCPWVNNCIGRRNYRYFFFFLVTLSLHMASIFALCLIYTFDHHCPWVNNCIGR 160
C+ FDHHCPW+NNCIGRRN++YF FL+ L+L
Sbjct: 64 CVLRFDHHCPWLNNCIGRRNHKYFLLFLLYLTL--------------------------- 96
Query: 161 RNYRYFFFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFGL 220
Y LV S + L + I S++++ L + + L
Sbjct: 97 ----YLILLLVL------SFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFL 146
Query: 221 TGFHMVLVARGRTTNEQVTGK 241
FH+ L+ + TT E + K
Sbjct: 147 LFFHLYLILKNITTYEYIKKK 167
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 32.4 bits (73), Expect = 0.26
Identities = 9/34 (26%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 95 CSVCNYCIETFDHHCPWVNNCI----GRRNYRYF 124
CS+ ++C++ FDH+ +C+ ++Y+ F
Sbjct: 1976 CSISDFCLKYFDHNSNEYYDCMKEEFADKDYKCF 2009
>gnl|CDD|234343 TIGR03753, blh_monoox, beta-carotene 15,15'-monooxygenase, Brp/Blh
family. This integral membrane protein family includes
Brp (bacterio-opsin related protein) and Blh (Brp-like
protein). Bacteriorhodopsin is a light-driven proton
pump with a covalently bound retinal cofactor that
appears to be derived beta-carotene. Blh has been shown
to cleave beta-carotene to product two all-trans retinal
molecules. Mammalian enzymes with similar enzymatic
function are not multiple membrane spanning proteins and
are not homologous.
Length = 259
Score = 31.9 bits (73), Expect = 0.29
Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 13/92 (14%)
Query: 139 FAL--CLIYTFDHHCPWVNNCIGRRNYRYFFFFLVTLSLHMASIFALCLIYVMINKNSLS 196
F L CL ++ H V G R R F ++ + L L ++ + L
Sbjct: 178 FGLYFCLWHSLRHVARIVRVLDGGRASRSLLRFARWAAILTLATLILLLGLYLLLPDPLE 237
Query: 197 DTEAIISLVIMSLIAILFIPIFGLTGFHMVLV 228
SL+A++FI + LT HM+LV
Sbjct: 238 -----------SLLALIFIGLAALTVPHMLLV 258
>gnl|CDD|240599 cd12916, VKOR_1, Vitamin K epoxide reductase family in bacteria and
plants. This family includes vitamin K epoxide
reductase (VKOR) present in bacteria and plant. VKOR
(also named VKORC1) is an integral membrane protein that
catalyzes the reduction of vitamin K 2,3-epoxide and
vitamin K to vitamin K hydroquinone, an essential
co-factor subsequently used in the gamma-carboxylation
of glutamic acid residues in blood coagulation enzymes.
All homologs of VKOR contain an active site CXXC motif,
which is switched between reduced and disulfide-bonded
states during the reaction cycle. In some plant and
bacterial homologs, the VKOR domain is fused with
domains of the thioredoxin family of oxidoreductases
which may function as redox partners in initiating the
reduction cascade.
Length = 133
Score = 30.3 bits (69), Expect = 0.42
Identities = 12/64 (18%), Positives = 23/64 (35%), Gaps = 4/64 (6%)
Query: 153 WVNNCIGRRNYRYFFFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAI 212
+ + R F L T +F+ L Y++ + S V+ +L+ +
Sbjct: 73 LLKSEKLERWTWLLLFGLAT----AGVVFSAYLTYLLAFVIGAFCPYCLTSAVLSTLLFL 128
Query: 213 LFIP 216
L I
Sbjct: 129 LTIL 132
>gnl|CDD|211613 TIGR00882, 2A0105, oligosaccharide:H+ symporter. [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 396
Score = 31.3 bits (71), Expect = 0.48
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 160 RRNYRYFFFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFG 219
N+ F F M++ F I+ + + N LS T+ I +SL +ILF P+FG
Sbjct: 1 NTNFWMFGLFFFLYFFIMSAYFPFFPIW-LHDVNGLSKTDTGIVFSCISLFSILFQPLFG 59
Query: 220 L 220
L
Sbjct: 60 L 60
>gnl|CDD|110319 pfam01306, LacY_symp, LacY proton/sugar symporter. This family is
closely related to the sugar transporter family.
Length = 413
Score = 30.9 bits (70), Expect = 0.72
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 160 RRNYRYFFFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFG 219
N+ F F M++ F I+ + + N LS T+ I +SL +ILF P+FG
Sbjct: 6 NTNFWMFGLFFFFYFFIMSAYFPFFPIW-LHDVNHLSKTDTGIVFSCISLFSILFQPLFG 64
Query: 220 L 220
L
Sbjct: 65 L 65
>gnl|CDD|149146 pfam07907, YibE_F, YibE/F-like protein. The sequences featured in
this family are similar to two proteins expressed by
Lactococcus lactis, YibE and YibF. Most of the members
of this family are annotated as being putative membrane
proteins, and in fact the sequences contain a high
proportion of hydrophobic residues.
Length = 244
Score = 30.5 bits (70), Expect = 0.81
Identities = 11/73 (15%), Positives = 27/73 (36%), Gaps = 13/73 (17%)
Query: 166 FFFFLVTLSLHMASIFALCLIYV---------MINKNSLSDTEAIIS----LVIMSLIAI 212
F L+ + L + + +I ++N + A + +++ ++A+
Sbjct: 36 LFLVLIPIILAGFNPILVTIILAIIITAVTLFLVNGFNKKTLAAFLGTLLGVLLAGILAL 95
Query: 213 LFIPIFGLTGFHM 225
L I + L G
Sbjct: 96 LVIKLTHLQGLGY 108
>gnl|CDD|236549 PRK09528, lacY, galactoside permease; Reviewed.
Length = 420
Score = 30.6 bits (70), Expect = 0.93
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 165 YFFFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFGL 220
+FFFF +S F+ I+ + + N LS T+ I SL A+LF P++GL
Sbjct: 18 FFFFFFFI----WSSWFSFFPIW-LHDINGLSGTDTGIIFSANSLFALLFQPLYGL 68
>gnl|CDD|223726 COG0653, SecA, Preprotein translocase subunit SecA (ATPase, RNA
helicase) [Intracellular trafficking and secretion].
Length = 822
Score = 30.7 bits (70), Expect = 0.95
Identities = 21/103 (20%), Positives = 40/103 (38%), Gaps = 20/103 (19%)
Query: 128 LVTLSLHMAS----------------IFALCLIYTFDHHCPWVNNCIGRRNYRYFFF--- 168
VT++ +MA + L +I T H ++N + R R
Sbjct: 479 AVTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGDPGSS 538
Query: 169 -FLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLI 210
F ++L + FA + +++K L + EAI S ++ +
Sbjct: 539 RFYLSLEDDLMRRFASDRLPALMDKLGLKEGEAIESKMVTRAV 581
>gnl|CDD|240040 cd04684, Nudix_Hydrolase_25, Contains a crystal structure of the
Nudix hydrolase from Enterococcus faecalis, which has an
unknown function. In general, members of the Nudix
hydrolase superfamily catalyze the hydrolysis of
NUcleoside DIphosphates linked to other moieties, X.
Enzymes belonging to this superfamily require a divalent
cation, such as Mg2+ or Mn2+, for their activity. They
also contain a highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which forms a
structural motif that functions as a metal binding and
catalytic site. Substrates of nudix hydrolases include
intact and oxidatively damaged nucleoside triphosphates,
dinucleoside polyphosphates, nucleotide-sugars and
dinucleotide enzymes. These substrates are metabolites
or cell signaling molecules that require regulation
during different stages of the cell cycle or during
periods of stress. In general, the role of the nudix
hydrolase is to sanitize the nucleotide pools and to
maintain cell viability, thereby serving as surveillance
& "house-cleaning" enzymes. Substrate specificity is
used to define families within the superfamily.
Differences in substrate specificity are determined by
the N-terminal extension or by residues in variable loop
regions. Mechanistically, substrate hydrolysis occurs by
a nucleophilic substitution reaction, with variation in
the numbers and roles of divalent cations required.
Length = 128
Score = 29.1 bits (66), Expect = 1.1
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 5/58 (8%)
Query: 20 LIGTTSLFYYYPCKYYLTHHPWVI-----PIQAVITFFVLANFTLATFMDPGAIPKVN 72
+G+ S ++Y P Y HH V A+ + A ++ +
Sbjct: 61 RLGSASRYFYSPDGDYDAHHLCVFYDARVVGGALPVQEPGEDSHGAAWLPLDEAIERL 118
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 30.0 bits (68), Expect = 1.5
Identities = 18/114 (15%), Positives = 39/114 (34%), Gaps = 11/114 (9%)
Query: 120 NYRYFFFFLVTLSLHMA--SIFALCLIY-TFDHHCPWVNNCIGRRNYRYFFFFLVTLSLH 176
N + F+ F++ + L A I L F + ++ F ++ L
Sbjct: 775 NRKIFWRFILIIGLLSAILFILTFLLYLLGFIANTLGLDLFQALLQTTAFTVLVLIQLLL 834
Query: 177 MASIFAL-CLIYVMI---NKNSLSDTEAIISLVIMSLIAILFIPIFGLTGFHMV 226
++ + + NK + ++I+ + I+F+P L F
Sbjct: 835 TLAVRSRGRPFLSSLLFSNKYLW----LALLVIIILQLLIIFLPPLNLKIFQPT 884
>gnl|CDD|153125 cd02434, Nodulin-21_like_3, Nodulin-21 and CCC1-related protein
family. Nodulin-21_like_3: This is a family of proteins
closely related to nodulin-21, a plant nodule-specific
protein that may be involved in symbiotic nitrogen
fixation. This family is also related to CCC1, a yeast
vacuole transmembrane protein that functions as an iron
and manganese transporter. .
Length = 225
Score = 29.6 bits (67), Expect = 1.5
Identities = 19/73 (26%), Positives = 25/73 (34%), Gaps = 10/73 (13%)
Query: 13 ATFAWFLLIGTTSLFYYYPCKYYL------THHPWVIPIQAVITFFVLANF-TLATFMDP 65
TF FL+ G L Y YY + I I T F+L +F +
Sbjct: 140 VTFLSFLVFGIIPLLPYLLGLYYYSQKEIDSVFALSILIFVAFTLFLLGSFKSKLYNGKW 199
Query: 66 ---GAIPKVNGIT 75
G I +NG
Sbjct: 200 IISGIIMLINGAA 212
>gnl|CDD|224727 COG1814, COG1814, Uncharacterized membrane protein [Function
unknown].
Length = 229
Score = 28.5 bits (64), Expect = 2.9
Identities = 11/60 (18%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 168 FFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFGLTGFHMVL 227
+ ++ L + ++ L + ++ S++ +I+ +V++ L+A L + G F + L
Sbjct: 173 ALIASIILALLALAILGAVLARLSGASIAK--SILRMVLLGLLAALLTYLVGR-LFGIFL 229
>gnl|CDD|183131 PRK11427, PRK11427, multidrug efflux system protein MdtO;
Provisional.
Length = 683
Score = 28.3 bits (63), Expect = 4.5
Identities = 27/117 (23%), Positives = 44/117 (37%), Gaps = 16/117 (13%)
Query: 127 FLVTLSLHMASIFALCLIYTFDHHCPWVNNCIGRRNYRYFFFFLVTLSLHMAS-IFALCL 185
F+V L + S+F LIY + + P + I F + T L + A+
Sbjct: 80 FVVATVLEIGSLF---LIYKWSYGYPLIRLIIAGPILMGCMFLMRTHRLGLVFFAVAIVA 136
Query: 186 IYVMINKNSLSDTEAIISL------------VIMSLIAILFIPIFGLTGFHMVLVAR 230
IY L E ++ L ++M+LI +L+ P + H L R
Sbjct: 137 IYGQTFPAMLDYPEVVVRLTLWCIVVGLYPTLLMTLIGVLWFPSRAINQMHQALNDR 193
>gnl|CDD|176194 cd08232, idonate-5-DH, L-idonate 5-dehydrogenase. L-idonate
5-dehydrogenase (L-ido 5-DH ) catalyzes the conversion
of L-lodonate to 5-ketogluconate in the metabolism of
L-Idonate to 6-P-gluconate. In E. coli, this GntII
pathway is a subsidiary pathway to the canonical GntI
system, which also phosphorylates and transports
gluconate. L-ido 5-DH is found in an operon with a
regulator indR, transporter idnT, 5-keto-D-gluconate
5-reductase, and Gnt kinase. L-ido 5-DH is a
zinc-dependent alcohol dehydrogenase-like protein. The
alcohol dehydrogenase ADH-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) which displays a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases(~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal GroES-like catalytic
domain. The MDR group contains a host of activities,
including the founding alcohol dehydrogenase (ADH),
quinone reductase, sorbitol dehydrogenase, formaldehyde
dehydrogenase, butanediol DH, ketose reductase, cinnamyl
reductase, and numerous others. The zinc-dependent
alcohol dehydrogenases (ADHs) catalyze the
NAD(P)(H)-dependent interconversion of alcohols to
aldehydes or ketones. ADH-like proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and generally have 2 tightly bound
zinc atoms per subunit. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines.
Length = 339
Score = 27.6 bits (62), Expect = 6.7
Identities = 7/30 (23%), Positives = 10/30 (33%), Gaps = 9/30 (30%)
Query: 95 CSVCNYCIETFDHHCPWVNNCIGRRNYRYF 124
C C+YC + C N R+
Sbjct: 89 CGTCDYCRAGRPNLCL---------NMRFL 109
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 28.0 bits (63), Expect = 7.0
Identities = 12/52 (23%), Positives = 24/52 (46%)
Query: 167 FFFLVTLSLHMASIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIF 218
F L+L + +FAL + VM + + ++ + LI ++F P+
Sbjct: 266 FLTGSILTLIIDLLFALIFLAVMFLYSWKLTLIVLAAIPLNVLITLIFQPLL 317
Score = 27.6 bits (62), Expect = 8.1
Identities = 9/32 (28%), Positives = 20/32 (62%)
Query: 198 TEAIISLVIMSLIAILFIPIFGLTGFHMVLVA 229
T +I++L+I L A++F+ + L + + L+
Sbjct: 268 TGSILTLIIDLLFALIFLAVMFLYSWKLTLIV 299
>gnl|CDD|224295 COG1377, FlhB, Flagellar biosynthesis pathway, component FlhB [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 363
Score = 27.6 bits (62), Expect = 8.5
Identities = 15/99 (15%), Positives = 33/99 (33%), Gaps = 20/99 (20%)
Query: 128 LVTLSLHMASIFALCLIYTFDHHCPWVNNCIGRRNYRYFFFFLVTLSLHMAS---IFALC 184
L + + + L ++ + G R F F ++ L S +
Sbjct: 33 LTSAASLLVGFLLLFFFGSY-----FARRLSGF--LRAFLEFPESMDLDDESALELIKAL 85
Query: 185 LIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFGLTGF 223
L+ ++ A++ +++ L+ L I GF
Sbjct: 86 LLEILK---------ALLPFLLVLLVVGLLANIL-QVGF 114
>gnl|CDD|240538 cd13133, MATE_like_7, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 438
Score = 27.5 bits (62), Expect = 8.5
Identities = 23/102 (22%), Positives = 39/102 (38%), Gaps = 22/102 (21%)
Query: 124 FFFFLVTLSLHMASIFALCLIYTFDHHCPWVNNCIGRRNYRY-----FFFFLVTLSLHMA 178
FF L+ F L + FD + RR R FFL
Sbjct: 202 LFFLLLLFRRKNRRRFGLRRAWRFDRE-------LLRRILRLGLPSGLQFFL-------- 246
Query: 179 SIFALCLIYVMINKNSLSDTEAIISLVIMSLIAILFIPIFGL 220
+ A + +++I L TE + ++ S+ ++ F+P+ GL
Sbjct: 247 DVGAFTVFFLLIG--RLGTTELAATNIVFSINSLAFLPMIGL 286
>gnl|CDD|219089 pfam06570, DUF1129, Protein of unknown function (DUF1129). This
family consists of several hypothetical bacterial
proteins of unknown function.
Length = 206
Score = 26.8 bits (60), Expect = 9.2
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 174 SLHMASIFALCL-IYVMINKNSLSDTEAIISLVIMSLIAILFIPIF 218
SL IFAL I + +KN+ I +L++ SL+ L +
Sbjct: 84 SLLFLGIFALMNGIMALFSKNAQPAYSGITTLLLTSLVGGLAMYYM 129
>gnl|CDD|223966 COG1035, FrhB, Coenzyme F420-reducing hydrogenase, beta subunit
[Energy production and conversion].
Length = 332
Score = 27.3 bits (61), Expect = 9.4
Identities = 8/33 (24%), Positives = 12/33 (36%), Gaps = 4/33 (12%)
Query: 88 RPPRCSHC----SVCNYCIETFDHHCPWVNNCI 116
C+ C +VC Y I D + C+
Sbjct: 3 DAGLCTGCGTCAAVCPYAITERDEAPLLIEECM 35
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
0.335 0.146 0.528
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,647,952
Number of extensions: 1281934
Number of successful extensions: 3488
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3406
Number of HSP's successfully gapped: 216
Length of query: 267
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 172
Effective length of database: 6,723,972
Effective search space: 1156523184
Effective search space used: 1156523184
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 58 (26.1 bits)