RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6330
(123 letters)
>gnl|CDD|238014 cd00057, FA58C, Coagulation factor 5/8 C-terminal domain, discoidin
domain; Cell surface-attached carbohydrate-binding
domain, present in eukaryotes and assumed to have
horizontally transferred to eubacterial genomes.
Length = 143
Score = 53.1 bits (128), Expect = 4e-10
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 18 GGAWCPKNPVEKDIREFIQIDLGSPHVVTGVQTQGRYDHGRGQEYTEEYILEYWRPGLRD 77
AW P D +++Q+DLG VTG+QTQGR G E+ Y ++Y G
Sbjct: 34 DNAWTPAVN---DPPQWLQVDLGKTRRVTGIQTQGR-KGGGSSEWVTSYKVQYSLDG-ET 88
Query: 78 WKQYYGGNGKAEYT 91
W Y + +T
Sbjct: 89 WTTYKDKGEEKVFT 102
>gnl|CDD|216100 pfam00754, F5_F8_type_C, F5/8 type C domain. This domain is also
known as the discoidin (DS) domain family.
Length = 128
Score = 52.5 bits (126), Expect = 6e-10
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 16 QAGGAWCPKNPVEKDIREFIQIDLGSPHVVTGVQTQGRYDHGRGQEYTEEYILEYWRPGL 75
AW K +++Q+DLG P +TGV TQGR D G Y + Y +EY G
Sbjct: 23 NGSTAWSSKWGDAP---QWLQVDLGKPKKITGVVTQGRQD--GGNGYVKSYKIEYSNDG- 76
Query: 76 RDWKQYYGG 84
+W + G
Sbjct: 77 ENWTEVKDG 85
>gnl|CDD|214572 smart00231, FA58C, Coagulation factor 5/8 C-terminal domain,
discoidin domain. Cell surface-attached
carbohydrate-binding domain, present in eukaryotes and
assumed to have horizontally transferred to eubacterial
genomes.
Length = 139
Score = 49.0 bits (117), Expect = 2e-08
Identities = 25/74 (33%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 15 EQAGGAWCPKNPVEKDIREFIQIDLGSPHVVTGVQTQGRYDHGRGQEYTEEYILEYWRPG 74
+ G WCP D+ +IQ+DLG VTGV T R+ +G Y EY
Sbjct: 30 GGSDGGWCPAKN---DLPPWIQVDLGRLRTVTGVITGRRHGNGDWVTYKLEYSD-----D 81
Query: 75 LRDWKQYYGGNGKA 88
+W Y GN K
Sbjct: 82 GVNWTTYKDGNSKV 95
>gnl|CDD|223661 COG0588, GpmA, Phosphoglycerate mutase 1 [Carbohydrate transport
and metabolism].
Length = 230
Score = 28.8 bits (65), Expect = 0.65
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 15/52 (28%)
Query: 63 TEEYILE----YWRPGLRDWK---QYYGG-------NGKAEYTEEYILEYWR 100
T +LE W P ++ W+ ++YG A+Y EE +L WR
Sbjct: 64 TLNIVLEESDQLWIPVIKSWRLNERHYGALQGLNKAETAAKYGEEQVLI-WR 114
>gnl|CDD|206728 cd04165, GTPBP1_like, GTP binding protein 1 (GTPBP1)-like family
includes GTPBP2. Mammalian GTP binding protein 1
(GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1
are GTPases whose specific functions remain unknown. In
mouse, GTPBP1 is expressed in macrophages, in smooth
muscle cells of various tissues and in some neurons of
the cerebral cortex; GTPBP2 tissue distribution appears
to overlap that of GTPBP1. In human leukemia and
macrophage cell lines, expression of both GTPBP1 and
GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The
chromosomal location of both genes has been identified
in humans, with GTPBP1 located in chromosome 22q12-13.1
and GTPBP2 located in chromosome 6p21-12. Human
glioblastoma multiforme (GBM), a highly-malignant
astrocytic glioma and the most common cancer in the
central nervous system, has been linked to chromosomal
deletions and a translocation on chromosome 6. The GBM
translocation results in a fusion of GTPBP2 and PTPRZ1,
a protein involved in oligodendrocyte differentiation,
recovery, and survival. This fusion product may
contribute to the onset of GBM.
Length = 224
Score = 27.3 bits (61), Expect = 2.1
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 45 VTGVQTQGRYDHGRGQ 60
+ GV TQG D+GRG+
Sbjct: 15 LLGVLTQGELDNGRGK 30
>gnl|CDD|225665 COG3123, COG3123, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 94
Score = 26.3 bits (58), Expect = 2.6
Identities = 12/41 (29%), Positives = 14/41 (34%), Gaps = 3/41 (7%)
Query: 47 GVQTQGRYDHGRGQEYTEEYI---LEYWRPGLRDWKQYYGG 84
GV G Y G + L PG DW+ Y G
Sbjct: 28 GVMAPGEYTFGTAAPEEMTVVSGALTVLLPGSDDWQVYTAG 68
>gnl|CDD|213995 cd12111, PHP_HisPPase_Thermotoga_like, Polymerase and Histidinol
Phosphatase domain of Thermotoga like. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. Thermotoga
PHP is an uncharacterized protein. HisPPase catalyzes
the eighth step of histidine biosynthesis, in which
L-histidinol phosphate undergoes dephosphorylation to
give histidinol. The HisPPase can be classified into
two types: the bifunctional HisPPase found in
proteobacteria that belongs to the DDDD superfamily and
the monofunctional Bacillus subtilis type that is a
member of the PHP family. The PHP domain has four
conserved sequence motifs and contains an invariant
histidine that is involved in metal ion coordination.
The PHP domain of HisPPase is structurally homologous
to other members of the PHP family that have a
distorted (beta/alpha)7 barrel fold with a trinuclear
metal site on the C-terminal side of the barrel.
Length = 226
Score = 26.2 bits (58), Expect = 4.1
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 43 HVVTGVQTQGRYDHGRGQEYTEEYILEY----WRPGLRDWKQY 81
HVV G++ G TE +Y R W++Y
Sbjct: 39 HVVDRASLIGKFPQGTHPGVTEANFEDYMEALKVEAKRAWEKY 81
>gnl|CDD|218518 pfam05238, CENP-N, Kinetochore protein CHL4 like. CHL4 is a
protein involved in chromosome segregation. It is a
component of the central kinetochore which mediates the
attachment of the centromere to the mitotic spindle.
CENP-N is one of the components that assembles onto the
CENP-A-nucleosome-associated (NAC) centromere. The
centromere, which is the basic element of chromosome
inheritance, is epigenetically determined in mammals.
CENP-A, the centromere-specific histone H3 variant,
assembles an array of nucleosomes and it is this that
seems to be the prime candidate for specifying
centromere identity. CENP-A nucleosomes directly recruit
a proximal CENP-A nucleosome associated complex (NAC)
comprised of CENP-M, CENP-N and CENP-T, CENP-U(50),
CENP-C and CENP-H. Assembly of the CENP-A NAC at
centromeres is dependent on CENP-M, CENP-N and CENP-T.
Additionally, there are seven other subunits which make
up the CENP-A-nucleosome distal (CAD) centromere,
CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and
CENP-S, also assembling on the CENP-A NAC.
Length = 390
Score = 25.4 bits (56), Expect = 8.7
Identities = 10/49 (20%), Positives = 15/49 (30%)
Query: 55 DHGRGQEYTEEYILEYWRPGLRDWKQYYGGNGKAEYTEEYILEYWRPGL 103
Y E +E R + + G K E + + W GL
Sbjct: 29 LSNGLSPYPAERTIEDLRETYDELQTLKGKQPKREIIDRILEGDWPHGL 77
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
0.317 0.140 0.462
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,757,082
Number of extensions: 602679
Number of successful extensions: 481
Number of sequences better than 10.0: 1
Number of HSP's gapped: 479
Number of HSP's successfully gapped: 16
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
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: 53 (24.4 bits)