RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1165
(461 letters)
>gnl|CDD|145533 pfam02437, Ski_Sno, SKI/SNO/DAC family. This family contains a
presumed domain that is about 100 amino acids long. All
members of this family contain a conserved CLPQ motif.
The c-ski proto-oncogene has been shown to influence
proliferation, morphological transformation and myogenic
differentiation. Sno, a Ski proto-oncogene homologue, is
expressed in two isoforms and plays a role in the
response to proliferation stimuli. Dachshund also
contains this domain. It is involved in various aspects
of development.
Length = 101
Score = 141 bits (357), Expect = 5e-41
Identities = 55/101 (54%), Positives = 69/101 (68%)
Query: 80 TSDQSRSELSETLLEGETISCFVVGGEKRLCLPQILNSVLRDFSLPQINQVCDDLQIFCS 139
TSD S +E + +LEGE I+CF+VGGE+RLCLPQI N L+ FSL QIN L I+C
Sbjct: 1 TSDPSSNECRQVVLEGEKIACFLVGGEERLCLPQIFNLFLKHFSLHQINTKLKRLDIYCV 60
Query: 140 RCNPEQLEILKLSGILPLTAASCGLMTKTDAERLCSTLLHQ 180
C EQL IL+ G +P CGL+T+TDAERLC+ LL+
Sbjct: 61 VCTVEQLRILRGLGAIPPGVNRCGLITRTDAERLCNDLLNA 101
Score = 59.7 bits (145), Expect = 3e-11
Identities = 21/40 (52%), Positives = 27/40 (67%)
Query: 304 CNPEQLEILKLSGILPLTAASCGLMTKTDAERLCSTLLHQ 343
C EQL IL+ G +P CGL+T+TDAERLC+ LL+
Sbjct: 62 CTVEQLRILRGLGAIPPGVNRCGLITRTDAERLCNDLLNA 101
>gnl|CDD|198114 smart01046, c-SKI_SMAD_bind, c-SKI Smad4 binding domain. c-SKI is
an oncoprotein that inhibits TGF-beta signaling through
interaction with Smad proteins. This domain binds to
Smad4.
Length = 95
Score = 123 bits (310), Expect = 3e-34
Identities = 47/70 (67%), Positives = 56/70 (80%)
Query: 196 SFKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGF 255
SF+VYHECFGKC+G+ +PEL++ ++ CIQCLEC G FSPQKFV H H S E RTCHWGF
Sbjct: 1 SFRVYHECFGKCQGLFVPELYSSPDAPCIQCLECRGMFSPQKFVMHSHRSPEKRTCHWGF 60
Query: 256 ESVKWRSYLL 265
+S WRSYL
Sbjct: 61 DSANWRSYLH 70
Score = 123 bits (310), Expect = 3e-34
Identities = 47/70 (67%), Positives = 56/70 (80%)
Query: 359 SFKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGF 418
SF+VYHECFGKC+G+ +PEL++ ++ CIQCLEC G FSPQKFV H H S E RTCHWGF
Sbjct: 1 SFRVYHECFGKCQGLFVPELYSSPDAPCIQCLECRGMFSPQKFVMHSHRSPEKRTCHWGF 60
Query: 419 ESVKWRSYLL 428
+S WRSYL
Sbjct: 61 DSANWRSYLH 70
>gnl|CDD|192152 pfam08782, c-SKI_SMAD_bind, c-SKI Smad4 binding domain. c-SKI is
an oncoprotein that inhibits TGF-beta signaling through
interaction with Smad proteins. This domain binds to
Smad4.
Length = 95
Score = 121 bits (304), Expect = 2e-33
Identities = 46/89 (51%), Positives = 65/89 (73%)
Query: 197 FKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGFE 256
F+VYHECFGKCKG+ +PEL++ ++ CIQCL+C F PQKFV H H + ENRTCHWGF+
Sbjct: 1 FRVYHECFGKCKGLFVPELYSSPDAACIQCLDCRLMFPPQKFVVHSHKTPENRTCHWGFD 60
Query: 257 SVKWRSYLLAVEEQQNYDQCLKILQIFKE 285
S WR+YLL ++ ++ ++ Q+ +E
Sbjct: 61 SANWRAYLLLSQDYTGKEETAELSQVLEE 89
Score = 121 bits (304), Expect = 2e-33
Identities = 46/89 (51%), Positives = 65/89 (73%)
Query: 360 FKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGFE 419
F+VYHECFGKCKG+ +PEL++ ++ CIQCL+C F PQKFV H H + ENRTCHWGF+
Sbjct: 1 FRVYHECFGKCKGLFVPELYSSPDAACIQCLDCRLMFPPQKFVVHSHKTPENRTCHWGFD 60
Query: 420 SVKWRSYLLAVEEQQNYDQCLKILQIFKE 448
S WR+YLL ++ ++ ++ Q+ +E
Sbjct: 61 SANWRAYLLLSQDYTGKEETAELSQVLEE 89
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 33.8 bits (77), Expect = 0.19
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 41 GVVTVTLVPKKEPADSAEPSPEPYITPPPPPIQQLP 76
GV+ + P + ++ A +PEP P P P
Sbjct: 71 GVLAIIGEPGEAGSEPAPAAPEPEAAPEPEAPAPAP 106
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 32.5 bits (74), Expect = 0.58
Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 3/74 (4%)
Query: 43 VTVTLVPKKEPADSAEPSPEPYITPPPPPIQQLPILTTSDQSRSELSETLLEGETISCFV 102
V + L+P+ EP P P PPPPP P + +++ + + +
Sbjct: 255 VELVLLPRATRLPEPEPQPPP---PPPPPEPPEPEEEPDEPDQTDPDDGEETDQIPEELM 311
Query: 103 VGGEKRLCLPQILN 116
+ IL
Sbjct: 312 FDAVEADLPDNILA 325
>gnl|CDD|236768 PRK10819, PRK10819, transport protein TonB; Provisional.
Length = 246
Score = 31.6 bits (72), Expect = 0.69
Identities = 10/30 (33%), Positives = 12/30 (40%)
Query: 48 VPKKEPADSAEPSPEPYITPPPPPIQQLPI 77
+ P EP PEP P PP + I
Sbjct: 63 AVQPPPEPVVEPEPEPEPIPEPPKEAPVVI 92
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 31.3 bits (71), Expect = 1.1
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 49 PKKEPADSAEPSPEPYITPPPPPIQQLPILTTS 81
P +E A P P P P + P LT +
Sbjct: 402 PVRETATPPPVPPRPVAPPVPHTPESAPKLTRA 434
>gnl|CDD|222828 PHA01732, PHA01732, proline-rich protein.
Length = 94
Score = 29.3 bits (65), Expect = 1.1
Identities = 9/43 (20%), Positives = 14/43 (32%), Gaps = 2/43 (4%)
Query: 48 VPKKEPADSAEPSPEPYITPPPPPIQQLPILTTSDQSRSELSE 90
P+ P P P P PP P + + ++ E
Sbjct: 9 PPEPPAPLPPAPVPPP--PPAPPAPVPEPTVKPVNAEAPKIRE 49
>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 767
Score = 30.9 bits (70), Expect = 1.5
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 27 VKSLQGPSTVL---RT--EGVVTVTLVPKKEPADSAEPSPEPYITPPPPPIQQLP 76
V+ GP ++ R+ EGV V ++ E + S + Y P P P+
Sbjct: 18 VREALGPDALVLSNRSVAEGVEIVAML--DEDLGAVAASAQAYAPPAPAPLPAAL 70
>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional.
Length = 584
Score = 30.8 bits (70), Expect = 1.5
Identities = 16/52 (30%), Positives = 20/52 (38%), Gaps = 7/52 (13%)
Query: 46 TLVPKKEPADSAEPSPEPYITPPPPPIQQLPILTTSDQSRSE---LSETLLE 94
T +P EP P PPPP P +Q +E L E +LE
Sbjct: 256 TRLPAPPQPPEEEPPPP----PPPPEDDDDPPEDEEEQDDAEDRALEEIVLE 303
>gnl|CDD|147195 pfam04904, NCD1, NAB conserved region 1 (NCD1). Nab1 and Nab2 are
co-repressors that specifically interact with and
repress transcription mediated by the three members of
the NGFI-A (Egr-1, Krox24, zif/268) family of
transcription factors. This region consists of the
N-terminal NAB conserved region 1, which interacts with
the EGR1 inhibitory domain (R1). It may also mediate
multimerisation.
Length = 82
Score = 28.7 bits (64), Expect = 1.8
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 127 INQVCDDLQIFCSRCNPEQLEILKLSGILP 156
I Q DD+Q C E LEI+ L G+
Sbjct: 29 IAQGGDDVQQLCEAGEEEFLEIMALVGMAS 58
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 29.9 bits (67), Expect = 3.4
Identities = 37/151 (24%), Positives = 50/151 (33%), Gaps = 21/151 (13%)
Query: 48 VPKKEPADSAEPSPEPYITPPPPPIQQLPILTTS-----DQSRSELSETLLEGETISCFV 102
P A A P P P + D+ R E + FV
Sbjct: 20 APPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKKDKPRRERKPKPASLWKLEDFV 79
Query: 103 VGGEKRLCLPQILNSVLRDFSL-PQINQVCDDLQIFCSRCNPEQLEILK--LSGILPLTA 159
V PQ + DF+L P++ DL C P Q ++L L+G +
Sbjct: 80 VE-------PQEGKTRFHDFNLAPELMHAIHDLGF--PYCTPIQAQVLGYTLAGHDAIGR 130
Query: 160 ASCGLMTKTDAERLCSTL--LHQRPGPTPRH 188
A G T A L S + L Q P P R+
Sbjct: 131 AQTG--TGKTAAFLISIINQLLQTPPPKERY 159
>gnl|CDD|216648 pfam01690, PLRV_ORF5, Potato leaf roll virus readthrough protein.
This family consists mainly of the potato leaf roll
virus readthrough protein. This is generated via a
readthrough of open reading frame 3 a coat protein
allowing transcription of open reading frame 5 to give
an extended coat protein with a large c-terminal
addition or read through domain. The readthrough
protein is thought to play a role in the circulative
aphid transmission of potato leaf roll virus. Also in
the family is open reading frame 6 from beet western
yellows virus and potato leaf roll virus both
luteovirus and an unknown protein from cucurbit
aphid-borne yellows virus a closterovirus.
Length = 460
Score = 29.7 bits (67), Expect = 3.5
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 55 DSAEPSPEPYITPPPPP 71
P P P TPPPP
Sbjct: 3 GEPGPKPGPTPTPPPPA 19
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 29.6 bits (66), Expect = 3.9
Identities = 17/67 (25%), Positives = 26/67 (38%)
Query: 12 NPHLKKVLKTYQLSAVKSLQGPSTVLRTEGVVTVTLVPKKEPADSAEPSPEPYITPPPPP 71
N + + +SAV+ ++ S E P+ EP EP PEP P P P
Sbjct: 383 NSQAQTAQEITPVSAVQPVEVISQPAMVEPEPEPEPEPEPEPEPEPEPEPEPEPEPEPEP 442
Query: 72 IQQLPIL 78
++
Sbjct: 443 QPNQDLM 449
>gnl|CDD|183147 PRK11465, PRK11465, putative mechanosensitive channel protein;
Provisional.
Length = 741
Score = 29.7 bits (67), Expect = 4.2
Identities = 13/74 (17%), Positives = 26/74 (35%)
Query: 51 KEPADSAEPSPEPYITPPPPPIQQLPILTTSDQSRSELSETLLEGETISCFVVGGEKRLC 110
+ A + P P I PP ++ + ++ SR + + G +
Sbjct: 70 RTAAATPPAEPVPKIVPPTLVEEKTVLQNVTEVSRHYGEALSARFGQLYRNITGSPHKPF 129
Query: 111 LPQILNSVLRDFSL 124
PQ ++ L F +
Sbjct: 130 NPQTFSNALTHFLM 143
>gnl|CDD|225499 COG2948, VirB10, Type IV secretory pathway, VirB10 components
[Intracellular trafficking and secretion].
Length = 360
Score = 29.4 bits (66), Expect = 4.7
Identities = 7/42 (16%), Positives = 11/42 (26%), Gaps = 3/42 (7%)
Query: 39 TEGVVTVTLV---PKKEPADSAEPSPEPYITPPPPPIQQLPI 77
+ V + E P + PP+ LP
Sbjct: 33 VGRIALVGFALIALQGEKKRINNTQPPSNVERGTPPLPPLPD 74
>gnl|CDD|180485 PRK06245, cofG, FO synthase subunit 1; Reviewed.
Length = 336
Score = 29.1 bits (66), Expect = 5.0
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 144 EQLEILKLSGILPLTAASCGLMTKTDAERLCSTLLHQRPGPTP 186
E++E LK + A S GLM + + RL +T+ PG P
Sbjct: 116 EEMEKLK-----EVNA-SMGLMLEQTSPRLLNTVHRGSPGKDP 152
Score = 29.1 bits (66), Expect = 5.0
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 307 EQLEILKLSGILPLTAASCGLMTKTDAERLCSTLLHQRPGPTP 349
E++E LK + A S GLM + + RL +T+ PG P
Sbjct: 116 EEMEKLK-----EVNA-SMGLMLEQTSPRLLNTVHRGSPGKDP 152
>gnl|CDD|236940 PRK11633, PRK11633, cell division protein DedD; Provisional.
Length = 226
Score = 28.8 bits (65), Expect = 5.4
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 49 PKKEPADSAEPSPEPYITPPPPPIQQ 74
PK +P E P P P P ++
Sbjct: 117 PKPKPQQKVEAPPAPKPEPKPVVEEK 142
>gnl|CDD|206085 pfam13914, Phostensin, Phostensin PP1-binding and SH3-binding
region. Phostensin has been identified as a PP1
regulatory protein binding PP1 at the KISF motif. The
domain also appears to carry an incomplete incomplete
SH3-binding domain PxRxP further upstream. It is likely
that Phostensin targets PP1 to the F-actin
cytoskeleton. Phostensin binds to actin and decreases
the elongation and depolymerisation rates of actin
filament pointed ends.
Length = 132
Score = 28.1 bits (62), Expect = 5.5
Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 7/70 (10%)
Query: 8 QPAYNPHLKKVLKTYQLSAVKSLQGPSTVLRTEGVVTVTLVPKKEPADSAEPSPEPYITP 67
+P +P + L K G + L+ G T T+VPK++P S T
Sbjct: 6 KPPGSPLP-----SRHLHPAKP--GHQSGLQRRGGNTFTVVPKRKPGSLPHGSQANGETA 58
Query: 68 PPPPIQQLPI 77
P P + I
Sbjct: 59 PQPAEDEEAI 68
>gnl|CDD|220387 pfam09763, Sec3, Exocyst complex component Sec3. This entry is the
conserved middle and C-terminus of the Sec3 protein.
Sec3 binds to the C-terminal cytoplasmic domain of GLYT1
(glycine transporter protein 1). Sec3 is the exocyst
component that is closest to the plasma membrane docking
site and it serves as a spatial landmark in the plasma
membrane for incoming secretory vesicles. Sec3 is
recruited to the sites of polarised membrane growth
through its interaction with Rho1p, a small GTP-binding
protein.
Length = 691
Score = 29.2 bits (66), Expect = 6.1
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 2 METIGQQPAYNP-HLKKVLKTYQLSAVKSL 30
E I +Q AY+ LKKVLK+Y ++
Sbjct: 610 AEEISRQAAYSKQALKKVLKSYTAKEIRKG 639
>gnl|CDD|222512 pfam14048, MBD_C, C-terminal domain of methyl-CpG binding protein
2 and 3. CpG-methylation is a frequently occurring
epigenetic modification of vertebrate genomes resulting
in transcriptional repression. This domain was found at
the C-terminus of the methyl-CpG-binding domain (MBD)
containing proteins MBD2 and MBD3, the latter was shown
to not bind directly to methyl-CpG DNA but rather
interact with components of the NuRD/Mi2 complex, an
abundant deacetylase complex. The domain is subject to
structure determination by the Joint Center of
Structural Genomics.
Length = 96
Score = 27.3 bits (61), Expect = 6.1
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 55 DSAEPSPEPYITPPPPPIQQLPILTTSDQSRSE 87
D+ E +P + P + + T D R E
Sbjct: 51 DALEKNPGVGLNTDQPLCKAFLV-TEEDIRRQE 82
>gnl|CDD|223037 PHA03301, PHA03301, envelope glycoprotein L; Provisional.
Length = 226
Score = 28.3 bits (63), Expect = 7.0
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 49 PKKEPADSAEPSPEPYITPPPPP 71
P P D A P P+ TPPP
Sbjct: 179 PLSAPDDEASPQPKSLATPPPVA 201
>gnl|CDD|224734 COG1821, COG1821, Predicted ATP-utilizing enzyme (ATP-grasp
superfamily) [General function prediction only].
Length = 307
Score = 28.6 bits (64), Expect = 7.1
Identities = 16/53 (30%), Positives = 24/53 (45%)
Query: 59 PSPEPYITPPPPPIQQLPILTTSDQSRSELSETLLEGETISCFVVGGEKRLCL 111
P+ Y+ P IL D E+++ +EGE +S + GEK L L
Sbjct: 136 EEPKKYVIKPADGCGGEGILFGRDFPDIEIAQEFIEGEHLSVSLSVGEKVLPL 188
>gnl|CDD|150442 pfam09771, Tmemb_18A, Transmembrane protein 188. The function of
this family of transmembrane proteins has not, as yet,
been determined.
Length = 126
Score = 27.4 bits (61), Expect = 7.1
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 4/64 (6%)
Query: 70 PPIQQLPILTTSDQSRSELSETLLEGETISCFVVGGEKRLCLPQILNSVLRDFSLPQINQ 129
P Q+P S + + + + L + FV G KR+ P I+ S R L + N
Sbjct: 52 PETFQVP-FIDSLWNHPDFTFSTLTL--LLLFVFGIHKRVVAPSIIASRCRT-VLAEFNM 107
Query: 130 VCDD 133
CDD
Sbjct: 108 SCDD 111
>gnl|CDD|218281 pfam04826, Arm_2, Armadillo-like. This domain contains
armadillo-like repeats. Proteins containing this domain
interact with numerous other proteins, through these
interactions they are involved in a wide variety of
processes including carcinogenesis, control of cellular
ageing and survival, regulation of circadian rhythm and
lysosomal sorting of G protein-coupled receptors.
Length = 254
Score = 28.1 bits (63), Expect = 8.4
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 127 INQVCDDLQIFCSRCNPE-QLEILKLSGILPLT 158
+NQVC+D I S N QL L+L L +T
Sbjct: 95 VNQVCED--IVSSPLNSAVQLAGLRLLTNLTVT 125
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
0.321 0.136 0.431
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,399,145
Number of extensions: 2056685
Number of successful extensions: 2486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2455
Number of HSP's successfully gapped: 35
Length of query: 461
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 361
Effective length of database: 6,502,202
Effective search space: 2347294922
Effective search space used: 2347294922
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: 61 (27.3 bits)