RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1940
(78 letters)
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats
(blades) of the beta propeller domain.
Length = 40
Score = 35.0 bits (81), Expect = 2e-04
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWD 57
T+ H + +A + G +A+ S GT I++WD
Sbjct: 7 TLKGHTGPVTSVAFSPDGKYLASGSDDGT-IKLWD 40
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 37.3 bits (87), Expect = 2e-04
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 15 LSSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELR 68
L + T+ H S ++ +A + G +++++S T I+VWD L LR
Sbjct: 80 LETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT-IKVWDVETGKCLTTLR 132
Score = 34.2 bits (79), Expect = 0.002
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELR 68
T+ H E+ +A + G + ++SS GT I++WD L LR
Sbjct: 172 TLTGHTGEVNSVAFSPDGEKLLSSSSDGT-IKLWDLSTGKCLGTLR 216
Score = 34.2 bits (79), Expect = 0.002
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDT 58
T+ H + C+A + G ++AT S GT I+VWD
Sbjct: 4 TLKGHTGGVTCVAFSPDGKLLATGSGDGT-IKVWDL 38
Score = 32.7 bits (75), Expect = 0.009
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDT 58
T+ H + +A + GT +A++S GT I++WD
Sbjct: 130 TLRGHTDWVNSVAFSPDGTFVASSSQDGT-IKLWDL 164
Score = 31.9 bits (73), Expect = 0.017
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 14 ELSSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELR 68
+LS+ T+ H++ + +A + G ++A+ S GT IRVWD + L
Sbjct: 205 DLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGT-IRVWDLRTGECVQTLS 258
Score = 30.8 bits (70), Expect = 0.036
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWD 57
T++ H + + LA + G +A+ S+ GT IR+WD
Sbjct: 256 TLSGHTNSVTSLAWSPDGKRLASGSADGT-IRIWD 289
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 34.3 bits (79), Expect = 3e-04
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWD 57
T+ H + +A + G ++A+ S GT +RVWD
Sbjct: 6 TLKGHTGPVTSVAFSPDGNLLASGSDDGT-VRVWD 39
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 30.1 bits (66), Expect = 0.089
Identities = 15/69 (21%), Positives = 31/69 (44%)
Query: 10 LSSTELSSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELRR 69
L E S +T+ H+ ++ L+ + G+++ + S IR+WD L L
Sbjct: 310 LWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEG 369
Query: 70 GSDPATLYW 78
S+ ++ +
Sbjct: 370 HSNVLSVSF 378
Score = 28.5 bits (62), Expect = 0.29
Identities = 13/56 (23%), Positives = 22/56 (39%)
Query: 15 LSSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELRRG 70
L + T+ H ++ LA + G ++ + S IR+WD L G
Sbjct: 185 LRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSG 240
Score = 27.4 bits (59), Expect = 0.67
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 16 SSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELR 68
SSSS T++ H S + +A + G ++A+ SS GT +R+WD L L
Sbjct: 272 SSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGT-VRLWDLETGKLLSSLT 323
Score = 26.6 bits (57), Expect = 1.3
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 16 SSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDT 58
+ T+ H + LA + G ++A+ SS I++WD
Sbjct: 143 TPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDL 185
Score = 24.7 bits (52), Expect = 7.9
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 23 TINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVELRRGSD 72
T++ H + + G+++A+ SS GT IR+WD L+ G
Sbjct: 237 TLSGHSDS-VVSSFSPDGSLLASGSSDGT-IRLWDLRSSSSLLRTLSGHS 284
>gnl|CDD|219053 pfam06482, Endostatin, Collagenase NC10 and Endostatin. NC10
stands for Non-helical region 10 and is taken from
human COL15A1. A mutation in this region in human
COL18A1 is associated with an increased risk of
prostrate cancer. This domain is cleaved from the
precursor and forms endostatin. Endostatin is a key
tumour suppressor and has been used highly successfully
to treat cancer. It is a potent angiogenesis inhibitor.
Endostatin also binds a zinc ion near the N-terminus;
this is likely to be of structural rather than
functional importance according to.
Length = 291
Score = 27.8 bits (62), Expect = 0.42
Identities = 14/52 (26%), Positives = 21/52 (40%)
Query: 16 SSSSSPVTINAHQSELACLALNQTGTMIATASSKGTLIRVWDTLKKVQLVEL 67
+SS + + LA GT+ + IRV + +KV L EL
Sbjct: 1 GTSSGVTVFATYDTMLAKARRTPEGTLAYITDRQELYIRVRNGWRKVLLGEL 52
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 25.8 bits (57), Expect = 2.6
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 54 RVWDTLKKVQLVELRRG 70
+VW L+ VQL EL R
Sbjct: 445 QVWQALETVQLAELARS 461
>gnl|CDD|100024 cd06060, misato, Human Misato shows similarity with Tubulin/FtsZ
family of GTPases and is localized to the the outer
membrane of mitochondria. It has a role in mitochondrial
fusion and in mitochondrial distribution and morphology.
Mutations in its Drosophila homolog (misato) lead to
irregular chromosome segregation during mitosis.
Deletion of the budding yeast homolog DML1 is lethal and
unregulate expression of DML1 leads to mitochondrial
dispersion and abnormalities in cell morphology. The
Misato/DML1 protein family is conserved from yeast to
human, but its exact function is still unknown.
Length = 493
Score = 25.4 bits (56), Expect = 3.6
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 1 MLYLQCSQDLSSTELSSSSSPVTI 24
LYLQC S + LS P+ I
Sbjct: 376 QLYLQCQYPGSMSALSVLPLPLKI 399
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
0.314 0.123 0.352
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,421,793
Number of extensions: 229182
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 16
Length of query: 78
Length of database: 10,937,602
Length adjustment: 47
Effective length of query: 31
Effective length of database: 8,852,964
Effective search space: 274441884
Effective search space used: 274441884
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)