RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12053
(167 letters)
>gnl|CDD|214711 smart00537, DCX, Domain in the Doublecortin (DCX) gene product.
Tandemly-repeated domain in doublin, the Doublecortin
gene product. Proposed to bind tubulin. Doublecortin
(DCX) is mutated in human X-linked neuronal migration
defects.
Length = 89
Score = 88.1 bits (219), Expect = 2e-23
Identities = 34/85 (40%), Positives = 52/85 (61%), Gaps = 3/85 (3%)
Query: 70 SYWRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLS--VRMDLPRGARYVFSMD 127
S + +++ F++NGD +F GV R S EAL L+ V++DLP G R ++++D
Sbjct: 1 SLVKPKRIRFYRNGDRFFKGVRLVVNRKR-FKSFEALLQDLTEVVKLDLPHGVRKLYTLD 59
Query: 128 GVRILTLDELEDNASYVVSSYKTFK 152
G ++ +LDELED SYV S + FK
Sbjct: 60 GKKVTSLDELEDGGSYVASGTEAFK 84
>gnl|CDD|176357 cd01617, DCX, Ubiquitin-like domain of DCX. DCX The
ubiquitin-like DCX domain is present in tandem within
the N-terminal half of the doublecortin protein.
Doublecortin is expressed in migrating neurons.
Mutations in the gene encoding doublecortin cause
lissencephaly in males and 'double-cortex syndrome' in
females.
Length = 80
Score = 73.0 bits (180), Expect = 9e-18
Identities = 32/80 (40%), Positives = 47/80 (58%), Gaps = 3/80 (3%)
Query: 75 RKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGA-RYVFSMDG-VRIL 132
++V ++NGDP+F GV R S +AL D L+ ++ L GA R ++++DG R+
Sbjct: 1 KRVVVYRNGDPFFKGVRLLVNRRR-FKSFDALLDDLTEKVQLDPGAVRKLYTLDGGHRVS 59
Query: 133 TLDELEDNASYVVSSYKTFK 152
LDELED YV S + FK
Sbjct: 60 LLDELEDGGVYVASGREPFK 79
>gnl|CDD|217637 pfam03607, DCX, Doublecortin.
Length = 60
Score = 68.7 bits (169), Expect = 3e-16
Identities = 24/55 (43%), Positives = 36/55 (65%)
Query: 98 RDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELEDNASYVVSSYKTFK 152
R S +AL D L+ ++ LP G R ++++DG R+ +LDELED SYV + + FK
Sbjct: 6 RRFKSFDALLDDLTEKVKLPSGVRKLYTLDGHRVTSLDELEDGGSYVAAGRERFK 60
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 31.5 bits (71), Expect = 0.20
Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 8/95 (8%)
Query: 28 GSRP---PSPSGGDNASETSSVMPPPP----PQQTQRPKSRAESKYDNLSYWRARKVTFF 80
G+RP PSP+ + V P PQ + + +L W+ + + F
Sbjct: 415 GARPAELPSPASAPTPEQQPPVARSAPLPPSPQASAPRNVASGKPGVDLGSWQGKFMNFT 474
Query: 81 KNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMD 115
+NG P V+ E + + +RM+
Sbjct: 475 RNGSRKQP-VQASSSDAAQTGVFEGVAELEKLRME 508
>gnl|CDD|223064 PHA03375, PHA03375, hypothetical protein; Provisional.
Length = 844
Score = 31.0 bits (70), Expect = 0.33
Identities = 28/118 (23%), Positives = 36/118 (30%), Gaps = 10/118 (8%)
Query: 11 VNTRPRPNTVLTGGGYWGSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAESKY---- 66
N RP T + PP P G + S SS PP T P S +Y
Sbjct: 371 DNVGGRPRTARLSAPPPSAAPPVPRSGSSPSSLSSSSSSAPPPATD-PSSDPTRRYVRII 429
Query: 67 --DNLSYWRARKVTFFKNGDPYFPGVEYRFKP--GRDIPSLEALQDKLSVRMDLPRGA 120
+ +R R + F R +P R SL R +P G
Sbjct: 430 SRLSFVRYRERLRRRAADPAFDFTPQRPRRRPLAHRREESLAV-DGPAPDRRKVPGGR 486
>gnl|CDD|180404 PRK06108, PRK06108, aspartate aminotransferase; Provisional.
Length = 382
Score = 29.9 bits (68), Expect = 0.61
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 83 GDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVF-SMDGV 129
G+ + + R + RD ++AL+ V + P GA Y F + GV
Sbjct: 280 GEDFVAELVARLRRSRDH-LVDALRALPGVEVAKPDGAMYAFFRIPGV 326
>gnl|CDD|218621 pfam05518, Totivirus_coat, Totivirus coat protein.
Length = 753
Score = 29.8 bits (67), Expect = 0.66
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 7/56 (12%)
Query: 15 PRPNTVLTGGGYWG-------SRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAE 63
PRP GGG + P+P G + ++ P PP Q + +
Sbjct: 698 PRPGGPPGGGGGLPPPPDLPAAAGPAPCGSSLIASPTAPPEPEPPGAEQADGAENQ 753
>gnl|CDD|176960 CHL00017, ndhH, NADH dehydrogenase subunit 7.
Length = 393
Score = 29.7 bits (67), Expect = 0.81
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 66 YDNLSYWRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFS 125
Y+NL AR+ F + D + EYRF + P+ E + +L VR++ P+G +F
Sbjct: 287 YENL---EARR--FDREKDSEWNDFEYRFISKKPSPTFELSKQELYVRVEAPKGELGIFL 341
Query: 126 M 126
+
Sbjct: 342 I 342
>gnl|CDD|220603 pfam10152, DUF2360, Predicted coiled-coil domain-containing protein
(DUF2360). This is the conserved 140 amino acid region
of a family of proteins conserved from nematodes to
humans. One C. elegans member is annotated as a
Daf-16-dependent longevity protein 1 but this could not
be confirmed. The function is unknown.
Length = 147
Score = 28.1 bits (63), Expect = 1.4
Identities = 10/36 (27%), Positives = 13/36 (36%)
Query: 28 GSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAE 63
G PP P A+ P P P++ AE
Sbjct: 69 GGPPPPPPARAEAASPPPPEAPAEPPAEPEPEAPAE 104
>gnl|CDD|220232 pfam09421, FRQ, Frequency clock protein. The frequency clock
protein, is the central component of the frq-based
circadian negative feedback loop, regulates various
aspects of the circadian clock in Neurospora crassa.
This protein has been shown to interact with itself via
a coiled-coil.
Length = 989
Score = 28.8 bits (64), Expect = 1.8
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 28 GSRPPSPSGGDNASETSSVMPPPPPQQTQRPKS----RAESKYDNLSYWR 73
G+ S G + + TS PPP Q+ RP+ R + +N+ Y R
Sbjct: 402 GTGTSSGDGNGSGNNTSPPGAPPPEQRPTRPRDLDPDRVQIPSENMEYIR 451
>gnl|CDD|220654 pfam10254, Pacs-1, PACS-1 cytosolic sorting protein. PACS-1 is a
cytosolic sorting protein that directs the localisation
of membrane proteins in the trans-Golgi network
(TGN)/endosomal system. PACS-1 connects the clathrin
adaptor AP-1 to acidic cluster sorting motifs contained
in the cytoplasmic domain of cargo proteins such as
furin, the cation-independent mannose-6-phosphate
receptor and in viral proteins such as human
immunodeficiency virus type 1 Nef.
Length = 413
Score = 27.9 bits (62), Expect = 2.9
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 29 SRPPSPSGGDNASETSSVMPPPPPQQTQR---PKSRAESKYDNLSYWRARKVT 78
S PPS SG AS+ +S PPP P + S ++ + YW A +
Sbjct: 234 SSPPSSSG---ASKEASATPPPSPSMSSSLSAAGSPVDAIGLQVDYWPAARPG 283
>gnl|CDD|240165 cd05142, Barstar, Barstar is an intracellular inhibitor of barnase,
an extracellular ribonuclease of Bacillus
amyloliquefaciens. Barstar binds tightly to the barnase
active site and sterically blocks it thus inhibiting its
potentially lethal RNase activity inside the cell.
Barstar also binds and inhibits a ribonuclease called
RNase Sa (produced by Streptomyces aureofaciens) which
belongs to the same enzyme family as does barnase.
Length = 87
Score = 26.5 bits (59), Expect = 2.9
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 97 GRDIPSLEALQDKLSVRMDLP 117
G +I S+E L L + LP
Sbjct: 6 GEEIRSIEDLHQILKKELALP 26
>gnl|CDD|149842 pfam08904, DUF1849, Domain of unknown function (DUF1849). This
family of proteins are functionally uncharacterized.
Length = 252
Score = 27.6 bits (62), Expect = 3.2
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 37 GDNASETSSVMPPPPPQQTQRPKSRAESKYDNLSYWRARKVTFF 80
G ET++++ P +++ E L W +++F
Sbjct: 162 GGKVYETTAIIGKPKAAPADDAEAKPEGALSGLPRWPVT-ISYF 204
>gnl|CDD|215397 PLN02744, PLN02744, dihydrolipoyllysine-residue acetyltransferase
component of pyruvate dehydrogenase complex.
Length = 539
Score = 27.9 bits (62), Expect = 3.3
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 32 PSPSGGDNASETSSVMPPPPPQQTQRPKSRAESK 65
PS S A + PPP ++ ++P S E K
Sbjct: 202 PSSSAAPAAPKAKPSPPPPKEEEVEKPASSPEPK 235
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex
non-fungal. The approx. 70 residue Med15 domain of the
ARC-Mediator co-activator is a three-helix bundle with
marked similarity to the KIX domain. The sterol
regulatory element binding protein (SREBP) family of
transcription activators use the ARC105 subunit to
activate target genes in the regulation of cholesterol
and fatty acid homeostasis. In addition, Med15 is a
critical transducer of gene activation signals that
control early metazoan development.
Length = 768
Score = 27.7 bits (61), Expect = 4.0
Identities = 15/48 (31%), Positives = 21/48 (43%)
Query: 14 RPRPNTVLTGGGYWGSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSR 61
P + G GS+PP G ++MP P PQ +Q P S+
Sbjct: 427 PQPPQPSVPSPGGPGSQPPQSVSGGMIPSPPALMPSPSPQMSQSPASQ 474
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein which
is localized in the photoreceptor outer segment discs.
Mutation/s in its genetic loci is implicated in the
recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 27.7 bits (61), Expect = 4.2
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 8/39 (20%)
Query: 27 WGSRPPSPSGGDNASETSSVMPP--------PPPQQTQR 57
W + PSPS + E +++P PPPQ+TQR
Sbjct: 1479 WTAAHPSPSCRCSTREKLTMLPECPEGAGGLPPPQRTQR 1517
>gnl|CDD|223068 PHA03384, PHA03384, early DNA-binding protein E2A; Provisional.
Length = 445
Score = 27.4 bits (61), Expect = 4.4
Identities = 17/90 (18%), Positives = 29/90 (32%), Gaps = 11/90 (12%)
Query: 32 PSPSGGDNASETSSVMPPPPPQQTQR----------PKSRAESKYDNLSYWRARKVTFFK 81
S S + S P PP++ R + AE SY R K
Sbjct: 7 SSDSPYSSDDSPSLEPPELPPKKKGRRRVSPVEEEEEEEEAEVVAVGFSYPPVRISR-GK 65
Query: 82 NGDPYFPGVEYRFKPGRDIPSLEALQDKLS 111
+G ++ + + A+++ LS
Sbjct: 66 DGKRPVRPLKEEKDSEKKASTEAAVRNPLS 95
>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein;
Provisional.
Length = 172
Score = 26.8 bits (59), Expect = 4.9
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 28 GSRPPSPS----GGDNASETSSVMPPPPPQQTQRPKSRAESK 65
G RP GG N ++++ PQQ + +SR +
Sbjct: 112 GGRPQGDDQGGQGGGNYNQSAPRQQAQRPQQAAQQQSRPAPQ 153
>gnl|CDD|234950 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 460
Score = 27.1 bits (61), Expect = 5.2
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 128 GVRILTLDELEDNASYVV--SSYKT 150
G +LTL+ YV+ SSY+
Sbjct: 150 GTAVLTLEPPPAGRVYVLELSSYQI 174
>gnl|CDD|163706 cd08150, catalase_like, Catalase-like heme-binding proteins and
protein domains. Catalase is a ubiquitous enzyme found
in both prokaryotes and eukaryotes involved in the
protection of cells from the toxic effects of peroxides.
It catalyses the conversion of hydrogen peroxide to
water and molecular oxygen. Several other related
protein families share the catalase fold and bind to
heme, but do not necessarily have catalase activity.
Length = 283
Score = 26.8 bits (59), Expect = 5.8
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 60 SRAESKYDNLSYWRARKVTF-FKNGDPYFPGVEYRFKPGRDIPSLE 104
S+ Y Y+ +VTF F NG + V + P IPSLE
Sbjct: 129 SQVPDSYAAARYFS--QVTFAFINGAGKYRVVRSKDNPVDGIPSLE 172
>gnl|CDD|227505 COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and
modification].
Length = 2365
Score = 26.9 bits (59), Expect = 7.0
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 31 PPSPSGGDNASETSSVMPPPPPQQTQRPKSR 61
PP P G + S+ PPPPP + +SR
Sbjct: 12 PPPPPGFEPPSQP---PPPPPPGVNVKKRSR 39
>gnl|CDD|99719 cd06397, PB1_UP1, Uncharacterized protein 1. The PB1 domain is a
modular domain mediating specific protein-protein
interaction which play a role in many critical cell
processes, such as osteoclastogenesis, angiogenesis,
early cardiovascular development, and cell polarity. A
canonical PB1-PB1 interaction, which involves
heterodimerization of two PB1 domain, is required for
the formation of macromolecular signaling complexes
ensuring specificity and fidelity during cellular
signaling. The interaction between two PB1 domain
depends on the type of PB1. There are three types of PB1
domains: type I which contains an OPCA motif, acidic
aminoacid cluster, type II which contains a basic
cluster, and type I/II which contains both an OPCA motif
and a basic cluster. Interactions of PB1 domains with
other protein domains have been described as
noncanonical PB1-interactions.
Length = 82
Score = 25.2 bits (55), Expect = 7.3
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 99 DIPSLEALQDKLSVRMDLPR---GARYVFS-MDGVRILTLDELED 139
DIP+ EAL KL +LP G Y+ + D + + + EL+D
Sbjct: 18 DIPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQD 62
>gnl|CDD|236504 PRK09418, PRK09418, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 780
Score = 26.6 bits (58), Expect = 7.4
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 17 PNTVLTGGGYWGSRPPSPSGGDNASETSSVMPP 49
P T TG G G P +P G+ + + PP
Sbjct: 667 PTTPPTGEGDNGENPTTPPTGEGNNGENPTTPP 699
>gnl|CDD|223041 PHA03321, PHA03321, tegument protein VP11/12; Provisional.
Length = 694
Score = 26.8 bits (59), Expect = 7.8
Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 5/59 (8%)
Query: 29 SRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAESKYDNLSYWR-ARKVTFFKNGDPY 86
+ PP P+ + + + M PP R R + W + DPY
Sbjct: 487 APPPEPAAAPSPATYYTRMGGGPP----RLPPRNRATETLRPDWGPPAAAPPEQMEDPY 541
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 26.4 bits (58), Expect = 8.7
Identities = 11/29 (37%), Positives = 11/29 (37%), Gaps = 6/29 (20%)
Query: 30 RPPSPSGGDNASETSSVMPPPPPQQTQRP 58
R P P GG S P PP RP
Sbjct: 2257 RTPDPQGGREDS------PAPPAHALYRP 2279
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 26.3 bits (58), Expect = 8.7
Identities = 11/72 (15%), Positives = 22/72 (30%), Gaps = 5/72 (6%)
Query: 5 PKTSKAVNTRPRPNTVLTGGGYWGSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAES 64
P+ S A P P+ ++P +P + T + PP
Sbjct: 390 PQPSAAAAASPSPSQS-----SAAAQPSAPQSATQPAGTPPTVSVDPPAAVPVNPPSTAP 444
Query: 65 KYDNLSYWRARK 76
+ + ++ K
Sbjct: 445 QAVRPAQFKEEK 456
>gnl|CDD|223037 PHA03301, PHA03301, envelope glycoprotein L; Provisional.
Length = 226
Score = 26.0 bits (57), Expect = 9.4
Identities = 10/38 (26%), Positives = 14/38 (36%)
Query: 28 GSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRAESK 65
RP S + + + S+ PPP R R K
Sbjct: 176 TRRPLSAPDDEASPQPKSLATPPPVAAPSRRTPRPRRK 213
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 26.2 bits (58), Expect = 9.8
Identities = 7/36 (19%), Positives = 12/36 (33%)
Query: 27 WGSRPPSPSGGDNASETSSVMPPPPPQQTQRPKSRA 62
WG+ P+ + V P P + + A
Sbjct: 389 WGAPTPAAPAAPPPAAAPPVPPAAPARPAAARPAPA 424
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
0.316 0.135 0.411
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,651,434
Number of extensions: 776831
Number of successful extensions: 1196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1173
Number of HSP's successfully gapped: 52
Length of query: 167
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 77
Effective length of database: 6,945,742
Effective search space: 534822134
Effective search space used: 534822134
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.9 bits)