RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3790
(253 letters)
>gnl|CDD|219188 pfam06814, Lung_7-TM_R, Lung seven transmembrane receptor. This
family represents a conserved region with eukaryotic
lung seven transmembrane receptors and related proteins.
Length = 287
Score = 165 bits (420), Expect = 3e-50
Identities = 71/163 (43%), Positives = 97/163 (59%), Gaps = 6/163 (3%)
Query: 1 MLVIVVSLGFGIVKPRLGAMLHRVVVVGVLYF---CLYLISLFIRIYDDRSN--MLLSSI 55
+L+++VSLG+GIVKP LG L +V +G+LYF C+ I I D S +L +
Sbjct: 125 ILLLIVSLGYGIVKPTLGDTLKKVAGIGLLYFVAACVLFIVRESGIESDSSYKLVLFFLL 184
Query: 56 PLALLDSTICWWIFTSLVHTIRTLRLRHNLVKLTLYTHFMHTLTFAVLASVVFMLYS-IK 114
PLALLD +WIF SL T+R L+LR NLVKL+LY HF + L +V+AS + +L I
Sbjct: 185 PLALLDLFFIYWIFRSLSKTLRDLKLRRNLVKLSLYRHFTNMLACSVVASFIIILVEKIY 244
Query: 115 EHRLALCLTHWKELWIDDAYWHLLFSLILVVIMILWRPMNNSQ 157
C +WK W+ A+W LL ++LV I LWRP N+
Sbjct: 245 FKTTDSCNKYWKTAWLITAFWELLSLVLLVTICYLWRPSQNNP 287
>gnl|CDD|216561 pfam01545, Cation_efflux, Cation efflux family. Members of this
family are integral membrane proteins, that are found to
increase tolerance to divalent metal ions such as
cadmium, zinc, and cobalt. These proteins are thought to
be efflux pumps that remove these ions from cells.
Length = 273
Score = 35.0 bits (81), Expect = 0.027
Identities = 24/161 (14%), Positives = 57/161 (35%), Gaps = 20/161 (12%)
Query: 24 VVVVGVLYFCLYLI-SLFIRIYDDRSNMLLSSIPLALLDSTICWWIFTSLVHTIRTLRLR 82
+V + +L ++++ R+ + +AL+ + + L R +
Sbjct: 64 IVSLLLLGVGVFILYESIERLISPEEIEPGGILLVALISLVVNLLLALYLRRAGR----K 119
Query: 83 HNLVKLTLYTHFMHTLTFAVLASVVFMLYSIKEHRLALCLTHWKELWIDDAYWHLLFSLI 142
L +H L + + V + L L L I D + +
Sbjct: 120 IGKKSSALRADALHALVDVLGSLAVL---------IGLLLILLTGLPIADP-----LASL 165
Query: 143 LVVIMILWRPMNNSQRYAFTPLLDPTLDEEDDEEVEQFINQ 183
L+ ++IL+ + + + + LL + D E +E+ + +
Sbjct: 166 LIALLILYTGLRLL-KESLSELLGASPDPELVDEIRDALEK 205
>gnl|CDD|235668 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
Length = 542
Score = 31.4 bits (72), Expect = 0.41
Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 5/60 (8%)
Query: 126 KELWIDDAYWHLLFS-----LILVVIMILWRPMNNSQRYAFTPLLDPTLDEEDDEEVEQF 180
W + L+ LIL++I + RP + EE E ++
Sbjct: 429 LPFWQQPWFMDLIKLAAGALLILILIFFVLRPRLRPLLPEEELAEEEAAAEEAALEEDEE 488
>gnl|CDD|219839 pfam08433, KTI12, Chromatin associated protein KTI12. This is a
family of chromatin associated proteins which interact
with the Elongator complex, a component of the
elongating form of RNA polymerase II. The Elongator
complex has histone acetyltransferase activity.
Length = 266
Score = 30.3 bits (69), Expect = 0.69
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 12/69 (17%)
Query: 161 FTPLLDPTLDEEDDEEVEQFINQNMVGMKMRPPPEDSTSPKPRPHPSSTLSPQEDLDRAC 220
FT L D L ++ + + K + PP +T KP + QE LD+
Sbjct: 148 FTVLDDEDLPLDEILKA--------LIEKSKLPPNQATQLKPLSETN---FLQE-LDKET 195
Query: 221 QAVMPSLLD 229
Q ++ +L+
Sbjct: 196 QDIVSEILN 204
>gnl|CDD|225125 COG2215, COG2215, ABC-type uncharacterized transport system,
permease component [General function prediction only].
Length = 303
Score = 30.4 bits (69), Expect = 0.81
Identities = 17/67 (25%), Positives = 25/67 (37%), Gaps = 5/67 (7%)
Query: 17 LGAMLHRVVVVGVLYFCLYLISLFIRIYDDRSNMLLSSIPLALLDSTICWWIFTSLVHTI 76
L ++L + V +L + I S L I LL W ++ T+
Sbjct: 99 LASLLQGLTAVVLLLA-FLGVLRLSSITFALSEPWLELISFLLLILLGLWLLW----RTL 153
Query: 77 RTLRLRH 83
R LR RH
Sbjct: 154 RRLRHRH 160
>gnl|CDD|224307 COG1389, COG1389, DNA topoisomerase VI, subunit B [DNA replication,
recombination, and repair].
Length = 538
Score = 30.4 bits (69), Expect = 0.90
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 3/46 (6%)
Query: 157 QRYAFTPLLDPTL--DEEDDEEVEQFINQNMVGMKMRPPPEDSTSP 200
+ F P P ++ EE E+ + MK PP D SP
Sbjct: 279 EYAGFDPDKKPRELTKKKTREEAEKLVEA-FKKMKFMAPPTDGLSP 323
>gnl|CDD|221179 pfam11711, Tim54, Inner membrane protein import complex subunit
Tim54. Mitochondrial function depends on the import of
hundreds of different proteins synthesised in the
cytosol. Protein import is a multi-step pathway which
includes the binding of precursor proteins to surface
receptors, translocation of the precursor across one or
both mitochondrial membranes, and folding and assembly
of the imported protein inside the mitochondrion. Most
precursor proteins carry amino-terminal targeting
signals, called pre-sequences, and are imported into
mitochondria via import complexes located in both the
outer and the inner membrane (IM). The IM complex, TIM,
is made up of at least two proteins which mediate
translocation of proteins into the matrix by removing
their signal peptide and another pair of proteins, Tim54
and Tim22, that insert the polytopic proteins, that
carry internal targetting information, into the inner
membrane.
Length = 377
Score = 29.3 bits (66), Expect = 2.0
Identities = 18/77 (23%), Positives = 27/77 (35%), Gaps = 1/77 (1%)
Query: 160 AFTPLLDPTLDEEDDEEVEQFINQNMVGMKMRPPPEDSTSPKPRPHPSSTLSPQEDLDRA 219
A ++ T E E + + P E++ P P P +SP E
Sbjct: 209 APETEVEATPAAESPAEPAEETAETTPEETEDAPEEENNKPVKPPVPKPYISPDEYPSAP 268
Query: 220 CQAVMPSLLD-STVLPL 235
+P LL S V+P
Sbjct: 269 LPPELPQLLQPSLVIPF 285
>gnl|CDD|220081 pfam08959, DUF1872, Domain of unknown function (DUF1872). The CS
domain, found in Ubiquitin specific peptidase 19
(USP-19), has no known function.
Length = 288
Score = 29.2 bits (65), Expect = 2.0
Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 12/67 (17%)
Query: 158 RYAFTPL-LDPTLDEEDDEE---VEQFINQNMVG-----MKMRPPPEDSTSPKPRPHPSS 208
Y FTP LD TL + + +E +Q VG + P P D T P H
Sbjct: 155 SYCFTPSRLDITLKKRQSQRWGGLEAPASQGAVGGAKVAVPSGPAPMDKTQPGSSKHS-- 212
Query: 209 TLSPQED 215
L QE+
Sbjct: 213 -LPAQEE 218
>gnl|CDD|223044 PHA03325, PHA03325, nuclear-egress-membrane-like protein;
Provisional.
Length = 418
Score = 29.1 bits (65), Expect = 2.1
Identities = 9/51 (17%), Positives = 19/51 (37%)
Query: 162 TPLLDPTLDEEDDEEVEQFINQNMVGMKMRPPPEDSTSPKPRPHPSSTLSP 212
L +D++ ++ P P +++P+P P + LS
Sbjct: 368 GSSLAAASSFLEDDDFGSPPLDLTTSLRHMPSPSVTSAPEPPSIPLTYLSD 418
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.5 bits (66), Expect = 2.2
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 191 RPPPEDSTSPKPRPHPSSTLSPQEDLDRACQAVMPSLLDSTVLP 234
PPP T P+P PH + +P A + P+L + P
Sbjct: 2700 DPPPPPPT-PEPAPHALVSATPLPPGPAAARQASPALPAAPAPP 2742
>gnl|CDD|218658 pfam05616, Neisseria_TspB, Neisseria meningitidis TspB protein.
This family consists of several Neisseria meningitidis
TspB virulence factor proteins.
Length = 502
Score = 28.8 bits (64), Expect = 3.4
Identities = 8/26 (30%), Positives = 8/26 (30%)
Query: 192 PPPEDSTSPKPRPHPSSTLSPQEDLD 217
P T P P P P D D
Sbjct: 347 PRENPGTRPNPEPDPDLNPDANPDTD 372
>gnl|CDD|215158 PLN02280, PLN02280, IAA-amino acid hydrolase.
Length = 478
Score = 28.4 bits (63), Expect = 4.7
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 4/74 (5%)
Query: 136 HLLFSLILVVIMILWRPMNNSQRYAFTPLLDPTLDEEDDEEVEQFINQNMVGMKMRPPPE 195
+L+ + + I + + S + + P+L + ++ N N GM +R P+
Sbjct: 4 LRNLNLLSLSLTISFVSLTISSSSSSSDADPPSLSFFE----VKYPNVNSFGMLLRNSPK 59
Query: 196 DSTSPKPRPHPSST 209
+ S PSS
Sbjct: 60 KNQSSGLPAKPSSD 73
>gnl|CDD|235964 PRK07204, PRK07204, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 329
Score = 27.9 bits (62), Expect = 5.6
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 40 FIRIYDDRSNMLLSSIPLAL 59
F+ I++D NM+ +SIP+AL
Sbjct: 277 FVTIFEDHGNMIAASIPVAL 296
>gnl|CDD|234092 TIGR03023, WcaJ_sugtrans, Undecaprenyl-phosphate glucose
phosphotransferase. This family of proteins encompasses
the E. coli WcaJ protein involved in colanic acid
biosynthesis , the Methylobacillus EpsB protein involved
in methanolan biosynthesis , as well as the GumD protein
involved in the biosynthesis of xanthan. All of these
are closely related to the well-characterized WbaP
(formerly RfbP) protein which is the first enzyme in
O-antigen biosynthesis in Salmonella typhimurium. The
enzyme transfers galactose from UDP-galactose (NOTE: not
glucose) to a polyprenyl carrier (utilizing the highly
conserved C-terminal sugar transferase domain,
pfam02397) a reaction which takes place at the
cytoplasmic face of the inner membrane. The N-terminal
hydrophobic domain is then believed to facilitate the
"flippase" function of transferring the liposaccharide
unit from the cytoplasmic face to the periplasmic face
of the inner membrane. Most of these genes are found
within large operons dedicated to the production of
complex exopolysaccharides such as the enterobacterial
O-antigen. Colanic acid biosynthesis utilizes a
glucose-undecaprenyl carrier , knockout of EpsB
abolishes incorporation of UDP-glucose into the lipid
phase and the C-terminal portion of GumD has been shown
to be responsible for the glucosyl-1-transferase
activity.
Length = 451
Score = 27.9 bits (63), Expect = 5.6
Identities = 31/130 (23%), Positives = 55/130 (42%), Gaps = 13/130 (10%)
Query: 29 VLYFCLYLISLFIRIYDDRSNMLLSSIPLALLDSTICWWIFTSLVHTIRTLRLRHNLVKL 88
++ L L L +R + S + L LL + + + + +L R+ R R L ++
Sbjct: 6 LILLALLLAYL-LRFGSRGIPDIESYLALLLL-AVLLFLLIFALFGLYRSWRRRSRLREM 63
Query: 89 TLYTHFMHTLTFAVLASVVFMLYSIKEHRLALCLTHWKELWIDDAYWHLLFSLILVVIMI 148
L TLTF +LA + F+L T + LW+ W LL +L++ +
Sbjct: 64 LLRILLAWTLTFLILALLAFLL---------KYGTEFSRLWL--LLWFLLALALLLLGRL 112
Query: 149 LWRPMNNSQR 158
+ R + R
Sbjct: 113 ILRLLLRRLR 122
>gnl|CDD|153040 pfam12606, RELT, Tumour necrosis factor receptor superfamily member
19. This family of proteins is found in bacteria and
eukaryotes. Proteins in this family are typically
between 49 and 288 amino acids in length. There are two
completely conserved residues (K and Y) that may be
functionally important. The members of tumor necrosis
factor receptor (TNFR) superfamily have been designated
as the "guardians of the immune system" due to their
roles in immune cell proliferation, differentiation,
activation, and death (apoptosis). The messenger RNA of
RELT is especially abundant in hematologic tissues such
as spleen, lymph node, and peripheral blood leukocytes
as well as in leukemias and lymphomas. RELT is able to
activate the NF-kappaB pathway and selectively binds
tumor necrosis factor receptor-associated factor 1.
Length = 50
Score = 25.3 bits (56), Expect = 6.1
Identities = 8/46 (17%), Positives = 21/46 (45%)
Query: 134 YWHLLFSLILVVIMILWRPMNNSQRYAFTPLLDPTLDEEDDEEVEQ 179
LL + V+ ++ ++ + +DP DE ++++ E+
Sbjct: 2 IAFLLVPVFFVMGLLGLLICTLLKKKGYRCTVDPLEDEPEEKKEEE 47
>gnl|CDD|218397 pfam05044, Prox1, Homeobox prospero-like protein (PROX1). The
homeobox gene Prox1 is expressed in a subpopulation of
endothelial cells that, after budding from veins, gives
rise to the mammalian lymphatic system. Prox1 has been
found to be an early specific marker for the developing
liver and pancreas in the mammalian foregut endoderm.
This family contains an atypical homeobox domain.
Length = 908
Score = 27.7 bits (61), Expect = 7.4
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 190 MRPPPEDSTSPKPRPHPSSTLSP 212
PP +D SP P P+++L P
Sbjct: 673 GSPPGKDRDSP-DLPRPTTSLHP 694
>gnl|CDD|223118 COG0040, HisG, ATP phosphoribosyltransferase [Amino acid transport
and metabolism].
Length = 290
Score = 27.2 bits (61), Expect = 7.4
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 212 PQEDLDRACQAVMPSLLDSTVLPLLDSD 239
P+E LD A++P + T+LPL D
Sbjct: 226 PRERLDEV-TALLPGMEGPTILPLADPG 252
>gnl|CDD|237700 PRK14397, PRK14397, membrane protein; Provisional.
Length = 222
Score = 27.1 bits (60), Expect = 7.8
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 20/67 (29%)
Query: 94 FMHTLTFAVLASVVFMLYSIKEHRLALCLTHWKE---------LWIDDAYWHLLFSLILV 144
H+LT LA+++ LYS C ++ ++I A+W LL S IL
Sbjct: 79 VFHSLT--ALAALLGHLYS--------CFLGFRGGKAVATTIGVFIPLAFWQLLLSGILC 128
Query: 145 VIMILWR 151
+++I WR
Sbjct: 129 LLVI-WR 134
>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral
inhibitor of apoptosis (IAP)-associated factor (VIAF)
subfamily; VIAF is a Phd-like protein that functions in
caspase activation during apoptosis. It was identified
as an IAP binding protein through a screen of a human
B-cell library using a prototype IAP. VIAF lacks a
consensus IAP binding motif and while it does not
function as an IAP antagonist, it still plays a
regulatory role in the complete activation of caspases.
VIAF itself is a substrate for IAP-mediated
ubiquitination, suggesting that it may be a target of
IAPs in the prevention of cell death. The similarity of
VIAF to Phd points to a potential role distinct from
apoptosis regulation. Phd functions as a cytosolic
regulator of G protein by specifically binding to G
protein betagamma (Gbg)-subunits. The C-terminal domain
of Phd adopts a thioredoxin fold, but it does not
contain a CXXC motif. Phd interacts with G protein beta
mostly through the N-terminal helical domain.
Length = 192
Score = 26.8 bits (60), Expect = 8.4
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 163 PLLDPTLDEEDDEEVEQFINQ 183
LLD +E D+EE ++F+ +
Sbjct: 43 KLLDELDEELDEEEDDRFLEE 63
>gnl|CDD|132496 TIGR03455, HisG_C-term, ATP phosphoribosyltransferase, C-terminal
domain. This domain corresponds to the C-terminal third
of the HisG protein. It is absent in many lineages.
Length = 100
Score = 26.0 bits (58), Expect = 8.9
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 212 PQEDLDRACQAVMPSLLDSTVLPLLDSD 239
P+++LD A++P L TV PL D
Sbjct: 37 PRDNLDEVR-ALLPGLEGPTVSPLADEG 63
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
0.327 0.140 0.434
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,364,875
Number of extensions: 1308359
Number of successful extensions: 2512
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2497
Number of HSP's successfully gapped: 92
Length of query: 253
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 158
Effective length of database: 6,723,972
Effective search space: 1062387576
Effective search space used: 1062387576
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 58 (26.0 bits)