RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9305
(465 letters)
>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 = 141 bits (356), Expect = 6e-40
Identities = 55/171 (32%), Positives = 79/171 (46%), Gaps = 10/171 (5%)
Query: 96 FASHLRAMLTDPGAVPKGNATTEIIQQ---MGFREGQVIFK--CPKCCCIKPERAHHCSV 150
S+ + + TDPG VPK E +Q + C C IKP R+HHC V
Sbjct: 1 LWSYFKTIFTDPGYVPKNPTEKEQEKQPDEESEEGDEEDELKFCSTCNIIKPPRSHHCRV 60
Query: 151 CQRCIRKMDHHCPWVNNCVGENNQKYFVLFTFYIATISIHSLFLAVNQFLMCVRNEWREC 210
C RC+ + DHHCPW+NNC+G N KYF+LF Y+ I L L + R
Sbjct: 61 CNRCVLRFDHHCPWLNNCIGRRNHKYFLLFLLYLTLYLILLLVL----SFYYLVYLIRNI 116
Query: 211 SSYSPPATVVFLVFLVF-EALLFAIFTTVMLLSQLQAIWNDETGIEQLKKE 260
+ +F ++ +L F +F + +L L I + T E +KK+
Sbjct: 117 ELFFFLILSLFSSIILLVLSLFFLLFLSFLLFFHLYLILKNITTYEYIKKK 167
Score = 104 bits (262), Expect = 2e-26
Identities = 39/87 (44%), Positives = 48/87 (55%), Gaps = 5/87 (5%)
Query: 303 PGAVPKGNATTEIIQQ---MGFREGQVIFK--CPKCCCIKPERAHHCSVCQRCIRKMDHH 357
PG VPK E +Q + C C IKP R+HHC VC RC+ + DHH
Sbjct: 12 PGYVPKNPTEKEQEKQPDEESEEGDEEDELKFCSTCNIIKPPRSHHCRVCNRCVLRFDHH 71
Query: 358 CPWVNNCVGENNQKYFVLFTILLMLLL 384
CPW+NNC+G N KYF+LF + L L L
Sbjct: 72 CPWLNNCIGRRNHKYFLLFLLYLTLYL 98
>gnl|CDD|227598 COG5273, COG5273, Uncharacterized protein containing DHHC-type Zn
finger [General function prediction only].
Length = 309
Score = 118 bits (298), Expect = 5e-30
Identities = 58/212 (27%), Positives = 91/212 (42%), Gaps = 16/212 (7%)
Query: 52 CAILTWLLILYAEFVVMAVMLIPNPHPMYRFFNMALFQTFAFLAFASHLRAMLTDPGAVP 111
+ L L + VV +++I + F LF LA S+L +++DPG +
Sbjct: 27 AYKMFIGLFLLSRIVVYTLLVIVKSLSLVVLFI-ILFIVILVLASFSYLLLLVSDPGYLG 85
Query: 112 KGNATT---EIIQQMGFR--EGQVIFKCPKCCCIKPERAHHCSVCQRCIRKMDHHCPWVN 166
+ + E I ++ G F C C KP R+HHCS+C RC+ K DHHCPW+N
Sbjct: 86 ENITLSGYRETISRLLDDGKFGTENF-CSTCNIYKPPRSHHCSICNRCVLKFDHHCPWIN 144
Query: 167 NCVGENNQKYFVLFTFYIATISIHSLFLAVNQFLMCVRNEWRECSSY-------SPPATV 219
NCVG N ++F F Y +++ L + + + S V
Sbjct: 145 NCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAG-IFSIRHDTSLAICFLIFGCSLLGV 203
Query: 220 VFLVFLVFEALLFAIFTTVMLLSQLQAIWNDE 251
VF + LLF I+ + L+ ++ I
Sbjct: 204 VFFIITTL-LLLFLIYLILNNLTTIEFIQISR 234
Score = 98.3 bits (245), Expect = 7e-23
Identities = 31/59 (52%), Positives = 40/59 (67%), Gaps = 3/59 (5%)
Query: 329 KCPKCCCIKPERAHHCSVCQRCIRKMDHHCPWVNNCVGENNQKYFVLF---TILLMLLL 384
C C KP R+HHCS+C RC+ K DHHCPW+NNCVG N ++F F TIL+ L++
Sbjct: 111 FCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVV 169
>gnl|CDD|176776 cd08798, Death_NFkB2_p100, Death domain of the Nuclear
Factor-KappaB2 precursor protein p100. Death Domain
(DD) of the Nuclear Factor-KappaB2 (NF-kB2) precursor
protein p100. The NF-kB family of transcription factors
play a central role in cardiovascular growth, stress
response, and inflammation by controlling the expression
of a network of different genes. There are five NF-kB
proteins, all containing an N-terminal REL Homology
Domain (RHD). NF-kB2 (or p52) is produced from the
processing of the precursor protein p100, which contains
ANK repeats and a C-terminal DD in addition to the RHD.
It is regulated by the non-canonical NF-kB pathway. The
p100 precursor is cytosolic and interacts with RelB.
Upon phosphorylation by IKKalpha, p100 is processed to
its 52kDa active, DNA binding form and the p52/RelB
complex is translocated into the nucleus. The
non-canonical pathway plays a role in adaptive immunity
and lymphorganogenesis. In general, DDs are
protein-protein interaction domains found in a variety
of domain architectures. Their common feature is that
they form homodimers by self-association or heterodimers
by associating with other members of the DD superfamily
including CARD (Caspase activation and recruitment
domain), DED (Death Effector Domain), and PYRIN. They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 76
Score = 30.6 bits (69), Expect = 0.30
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 289 TQPPSRSKFESYLYPGAVPKGNATTEIIQQMGFREG 324
TQ P S SY G +G E +Q MG REG
Sbjct: 37 TQSPPGSLLRSYELAGGPLQG--LIEALQDMGLREG 70
>gnl|CDD|236136 PRK07946, PRK07946, putative monovalent cation/H+ antiporter
subunit C; Reviewed.
Length = 163
Score = 31.6 bits (72), Expect = 0.49
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 382 LLLGPALCDQAPDKDDTEDDVTTTPASEFEAFYPRE 417
L L APD D ++D T +E +AF P E
Sbjct: 117 ALRRRGLASAAPDHDRSDDPETGRQTAEGDAFGPEE 152
>gnl|CDD|218624 pfam05529, Bap31, B-cell receptor-associated protein 31-like.
Bap31 is a polytopic integral protein of the endoplasmic
reticulum membrane and a substrate of caspase-8. Bap31
is cleaved within its cytosolic domain, generating
pro-apoptotic p20 Bap31.
Length = 149
Score = 28.7 bits (65), Expect = 3.3
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 7/50 (14%)
Query: 55 LTWLL---ILYAEFVVMAVMLIPNPHPMYRFFNMALFQTFAFLAFASHLR 101
L W L +LYAE V ++++P P P+ R +F++ + L + +
Sbjct: 3 LYWTLVFGLLYAEMAVFLLLVLPLPSPIRR----KIFKSVSKLQLSQQFQ 48
>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2
gamma). eIF2 is a heterotrimeric translation initiation
factor that consists of alpha, beta, and gamma subunits.
The GTP-bound gamma subunit also binds initiator
methionyl-tRNA and delivers it to the 40S ribosomal
subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is
released from the ribosome. The gamma subunit has no
intrinsic GTPase activity, but is stimulated by the
GTPase activating protein (GAP) eIF5, and GDP/GTP
exchange is stimulated by the guanine nucleotide
exchange factor (GEF) eIF2B. eIF2B is a heteropentamer,
and the epsilon chain binds eIF2. Both eIF5 and
eIF2B-epsilon are known to bind strongly to eIF2-beta,
but have also been shown to bind directly to eIF2-gamma.
It is possible that eIF2-beta serves simply as a
high-affinity docking site for eIF5 and eIF2B-epsilon,
or that eIF2-beta serves a regulatory role. eIF2-gamma
is found only in eukaryotes and archaea. It is closely
related to SelB, the selenocysteine-specific elongation
factor from eubacteria. The translational factor
components of the ternary complex, IF2 in eubacteria and
eIF2 in eukaryotes are not the same protein (despite
their unfortunately similar names). Both factors are
GTPases; however, eubacterial IF-2 is a single
polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is
a member of the same family as eubacterial IF2, but the
two proteins are only distantly related. This family
includes translation initiation, elongation, and release
factors.
Length = 197
Score = 29.2 bits (66), Expect = 3.7
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 131 IFKCPKCCCIKPERAHHCSVCQRCIRKMD 159
I+KCP C C +P C C C +
Sbjct: 47 IYKCPNCGCPRPYDTPECE-CPGCGGETK 74
Score = 29.2 bits (66), Expect = 3.7
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 327 IFKCPKCCCIKPERAHHCSVCQRCIRKMD 355
I+KCP C C +P C C C +
Sbjct: 47 IYKCPNCGCPRPYDTPECE-CPGCGGETK 74
>gnl|CDD|215869 pfam00344, SecY, SecY translocase.
Length = 340
Score = 28.6 bits (65), Expect = 7.5
Identities = 12/67 (17%), Positives = 22/67 (32%), Gaps = 10/67 (14%)
Query: 176 YFVLFTFYIATISIHSLFLAVNQFLMCVRNEWRECSSYSPPATVVFLVFLVFEALLFAIF 235
+ IA S L L Y P + V+++F + + F+ F
Sbjct: 208 SLLANPQTIAQFLGSSFPLWPVSGLA----------YYLPIGSPVYILFYIVLIIFFSYF 257
Query: 236 TTVMLLS 242
T + +
Sbjct: 258 YTAIGFN 264
>gnl|CDD|220310 pfam09608, Alph_Pro_TM, Putative transmembrane protein
(Alph_Pro_TM). This family consists of predicted
transmembrane proteins of about 270 amino acids. Members
are found, so far, only among the Alphaproteobacteria
and only once in each genome.
Length = 236
Score = 28.3 bits (64), Expect = 8.1
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 101 RAMLTDPGAVPKGNATTEIIQQMGFREGQVI 131
RA + P VP G T I FR+G+VI
Sbjct: 158 RASIRLPANVPVGTYTVRIYL---FRDGRVI 185
>gnl|CDD|165177 PHA02834, PHA02834, chemokine receptor-like protein; Provisional.
Length = 323
Score = 28.3 bits (63), Expect = 8.7
Identities = 16/100 (16%), Positives = 42/100 (42%), Gaps = 4/100 (4%)
Query: 164 WVNNCVGENNQKYFVLFTFYIATISIHSLFLAVNQFLMC---VRNEWRECSSYSPPATV- 219
+ C+ + + F F+ I+I + + + + C + + C + + ++
Sbjct: 170 NLKQCIFNDYHENFSWSAFFNFEINIFGIVIPLIILIYCYSKILYTLKNCKNKNKTRSIK 229
Query: 220 VFLVFLVFEALLFAIFTTVMLLSQLQAIWNDETGIEQLKK 259
+ L + F + + F V+ ++ LQ++ + G KK
Sbjct: 230 IILTVVTFTVVFWVPFNIVLFINSLQSVGLIDIGCYHFKK 269
>gnl|CDD|221099 pfam11377, DUF3180, Protein of unknown function (DUF3180). Some
members in this family of proteins are annotated as
membrane proteins however this cannot be confirmed.
Currently there is no known function.
Length = 137
Score = 27.6 bits (62), Expect = 8.8
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 49 GVICAILTWLLILYAEFVVMAVMLIP 74
V+ A+ WLL E ++ ++P
Sbjct: 5 AVVGAVAGWLLASVLERYGGSLPILP 30
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
0.328 0.140 0.468
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,924,839
Number of extensions: 2276250
Number of successful extensions: 3323
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3303
Number of HSP's successfully gapped: 31
Length of query: 465
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 365
Effective length of database: 6,502,202
Effective search space: 2373303730
Effective search space used: 2373303730
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 (21.8 bits)
S2: 61 (27.4 bits)