RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15107
(135 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 71.0 bits (175), Expect = 1e-17
Identities = 24/45 (53%), Positives = 30/45 (66%)
Query: 69 RRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
RR+RTTFT QL+ LE F K RYP REE+A K+ L E +V+
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVK 45
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in
the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 63.4 bits (155), Expect = 1e-14
Identities = 21/45 (46%), Positives = 28/45 (62%)
Query: 69 RRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
RR+RT FT QL+ LE F K YP REE+A ++ L E +V+
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVK 45
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 61.5 bits (150), Expect = 5e-14
Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 68 QRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+RR+RT+FT QL+ LE F K YP REE+A K+ L E +V+
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVK 46
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 49.4 bits (118), Expect = 2e-08
Identities = 16/52 (30%), Positives = 23/52 (44%)
Query: 62 SGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQ 113
+ +R T QL VLE F YP R +++L +N+P VQ
Sbjct: 45 QDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQ 96
>gnl|CDD|238711 cd01423, MGS_CPS_I_III, Methylglyoxal synthase-like domain found in
pyr1 and URA1-like carbamoyl phosphate synthetases
(CPS), including ammonia-dependent CPS Type I, and
glutamine-dependent CPS Type III. These are multidomain
proteins, in which MGS is the C-terminal domain.
Length = 116
Score = 28.4 bits (64), Expect = 0.53
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 88 GKTRYPDIFMREEVALKINLPESRVQGYPDIFMRE 122
K ++ ++ L INLP +R + D
Sbjct: 59 DKPSLRELLAEGKIDLVINLPSNRGKRVLDNDYVM 93
>gnl|CDD|235653 PRK05952, PRK05952, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 381
Score = 28.5 bits (64), Expect = 1.2
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 26 GGGGA-------AMASYLKSAPYG-VNGIGLSMDSLHSSLGYIPSGNHR------KQRRE 71
G GGA +A + YG + G GL+ D+ H S P + + +Q
Sbjct: 209 GEGGAILVLESAELAQKRGAKIYGQILGFGLTCDAYHMS---APEPDGKSAIAAIQQCLA 265
Query: 72 RTTFTRAQLD 81
R+ T +D
Sbjct: 266 RSGLTPEDID 275
>gnl|CDD|236053 PRK07571, PRK07571, bidirectional hydrogenase complex protein HoxE;
Reviewed.
Length = 169
Score = 27.4 bits (61), Expect = 1.9
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 13/63 (20%)
Query: 61 PSGNHRKQRRERTTFTRAQ---------LDVLESLFGKTRYPDIFMREEVALKINLPESR 111
PSG+ R + E T R Q L + LFG Y + + VA ++ LP SR
Sbjct: 15 PSGDKRFKVLEA-TMKRNQYRQDALIEVLHKAQELFG---YLERDLLLYVARQLKLPLSR 70
Query: 112 VQG 114
V G
Sbjct: 71 VYG 73
>gnl|CDD|183425 PRK12308, PRK12308, bifunctional argininosuccinate
lyase/N-acetylglutamate synthase; Provisional.
Length = 614
Score = 27.8 bits (62), Expect = 2.0
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 56 SLGYIPSGNHRKQRRERTTF--TRAQLDVLESLFGKTRYPDIFMREE--VALKINLPESR 111
SLG + Q + +A+ ++ +F TR P+ FM++ K LPE +
Sbjct: 532 SLGVEAGWQVQGQGSALVQYLVEKARQMAIKKVFVLTRVPEFFMKQGFSPTSKSLLPE-K 590
Query: 112 VQGYPDIFMRE----EVALKINL 130
V D R+ EVAL++NL
Sbjct: 591 VLKDCDQCPRQHACDEVALEVNL 613
>gnl|CDD|238955 cd01997, GMP_synthase_C, The C-terminal domain of GMP synthetase.
It contains two subdomains; the ATP pyrophosphatase
domain which closes to the N-termial and the
dimerization domain at C-terminal end. The ATP-PPase is
a twisted, five-stranded parallel beta-sheet sandwiched
between helical layers. It has a signature
nucleotide-binding motif, or P-loop, at the end of the
first-beta strand.The dimerization domain formed by the
C-terminal 115 amino acid for prokaryotic proteins. It
is adjacent to teh ATP-binding site of the ATP-PPase
subdomain. The largest difference between the primary
sequence of prokaryotic and eukaryotic GMP synthetase
map to the dimerization domain.Eukaryotic GMP synthetase
has several large insertions relative to prokaryotes.
Length = 295
Score = 27.5 bits (62), Expect = 2.1
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 94 DIFMR--EEVALKINLPESRVQG--YPDI 118
+ F+ EE A K+ L E QG YPD+
Sbjct: 85 ETFIEVFEEEAKKLGLAEYLAQGTLYPDV 113
>gnl|CDD|215747 pfam00145, DNA_methylase, C-5 cytosine-specific DNA methylase.
Length = 320
Score = 27.3 bits (61), Expect = 3.0
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 12/63 (19%)
Query: 58 GYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPE-SRVQGYP 116
G PS +RK R T + GK R + ++ E +R+QG+P
Sbjct: 238 GKGPSFTYRKSGRGEAPKT--------GILGKNGERF---RPKNIRRLTPRECARLQGFP 286
Query: 117 DIF 119
D F
Sbjct: 287 DDF 289
>gnl|CDD|163675 cd07937, DRE_TIM_PC_TC_5S, Pyruvate carboxylase and
Transcarboxylase 5S, carboxyltransferase domain. This
family includes the carboxyltransferase domains of
pyruvate carboxylase (PC) and the transcarboxylase (TC)
5S subunit. Transcarboxylase 5S is a cobalt-dependent
metalloenzyme subunit of the biotin-dependent
transcarboxylase multienzyme complex. Transcarboxylase
5S transfers carbon dioxide from the 1.3S biotin to
pyruvate in the second of two carboxylation reactions
catalyzed by TC. The first reaction involves the
transfer of carbon dioxide from methylmalonyl-CoA to the
1.3S biotin, and is catalyzed by the 12S subunit. These
two steps allow a carboxylate group to be transferred
from oxaloacetate to propionyl-CoA to yield pyruvate and
methylmalonyl-CoA. The catalytic domain of
transcarboxylase 5S has a canonical TIM-barrel fold with
a large C-terminal extension that forms a funnel leading
to the active site. Transcarboxylase 5S forms a
homodimer and there are six dimers per complex. In
addition to the catalytic domain, transcarboxylase 5S
has several other domains including a
carbamoyl-phosphate synthase domain, a biotin
carboxylase domain, a carboxyltransferase domain, and an
ATP-grasp domain. Pyruvate carboxylase, like TC, is a
biotin-dependent enzyme that catalyzes the carboxylation
of pyruvate to produce oxaloacetate. In mammals, PC has
critical roles in gluconeogenesis, lipogenesis,
glyceroneogenesis, and insulin secretion. Inherited PC
deficiencies are linked to serious diseases in humans
such as lactic acidemia, hypoglycemia, psychomotor
retardation, and death. PC is a single-chain enzyme and
is active only in its homotetrameric form. PC has three
domains, an N-terminal biotin carboxylase domain, a
carboxyltransferase domain (this alignment model), and a
C-terminal biotin-carboxyl carrier protein domain. This
family belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 275
Score = 26.2 bits (59), Expect = 5.7
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 29 GAAMASYLKSAPYGVNGIGLSMDSLHSSLGY 59
G A+A+YL +A GV+ + ++ L S G
Sbjct: 204 GLAVATYLAAAEAGVDIVDTAISPL--SGGT 232
>gnl|CDD|220228 pfam09415, CENP-X, CENP-S associating Centromere protein X. The
centromere, essential for faithful chromosome
segregation during mitosis, has a network of
constitutive centromere-associated (CCAN) proteins
associating with it during mitosis. So far in
vertebrates at least 15 centromere proteins have been
identified, which are divided into several subclasses
based on functional and biochemical analyses. These
provide a platform for the formation of a functional
kinetochore during mitosis. CENP-S is one that does not
associate with the CENP-H-containing complex but rather
interacts with CENP-X to form a stable assembly of outer
kinetochore proteins that functions downstream of other
components of the CCAN. This complex may directly allow
efficient and stable formation of the outer kinetochore
on the CCAN platform.
Length = 71
Score = 24.9 bits (55), Expect = 6.7
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 76 TRAQLDVLESLFGKTRYPDIFMREEVA 102
TR D LE + Y DIF+RE VA
Sbjct: 18 TRITKDALELV---AEYLDIFVREAVA 41
>gnl|CDD|216334 pfam01153, Glypican, Glypican.
Length = 559
Score = 26.2 bits (58), Expect = 7.1
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 88 GKTRYPDIFMREEVALKINLPESRVQGY-PDIFMREEV-ALKI 128
GK RY M + +A +IN PE V PD +R+++ LKI
Sbjct: 421 GKGRYLPEVMGDGLANQINNPEVEVDITKPDPVIRQQIMKLKI 463
>gnl|CDD|114751 pfam06047, SynMuv_product, Ras-induced vulval development
antagonist. This family is from synthetic multi-vulval
genes which encode chromatin-associated proteins
involved in transcriptional repression. This protein
has a role in antagonising Ras-induced vulval
development.
Length = 105
Score = 25.1 bits (55), Expect = 8.3
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 17/57 (29%)
Query: 27 GGGAAMASYLKSAPYGVNG--------IGLSMDSLHS--SLGYIPSGNHRKQRRERT 73
G GAAMA Y++ G IGL+ + + + +GY+ SG+ R +R
Sbjct: 13 GEGAAMAQYVQK------GKRIPRRGEIGLTSEEIENFEKVGYVMSGS-RHKRMNAV 62
>gnl|CDD|227584 COG5259, RSC8, RSC chromatin remodeling complex subunit RSC8
[Chromatin structure and dynamics / Transcription].
Length = 531
Score = 26.0 bits (57), Expect = 8.5
Identities = 14/64 (21%), Positives = 24/64 (37%)
Query: 37 KSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQRRERTTFTRAQLDVLESLFGKTRYPDIF 96
+S + I ++DS + RK R R +AQL+ L+ G + +
Sbjct: 388 ESQEHIEEVIEYALDSGKEKAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKS 447
Query: 97 MREE 100
E
Sbjct: 448 TSLE 451
>gnl|CDD|182023 PRK09665, PRK09665, PTS system galactitol-specific transporter
subunit IIA; Provisional.
Length = 150
Score = 25.5 bits (56), Expect = 8.6
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 5/38 (13%)
Query: 78 AQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQGY 115
QL +L LFGK + PDI V + LPE++++ Y
Sbjct: 108 QQLKLLRCLFGKLQQPDI-----VETLLTLPETQLKEY 140
>gnl|CDD|215530 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 26.0 bits (57), Expect = 8.6
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 2/62 (3%)
Query: 9 GCNADGELAFPSFGTSCGGGGAAMASYLKSAPYGVNGIGLSMDSLHSSLGYIPSGNHRKQ 68
FP F S + S P+GV GIG ++ +HSS + S H
Sbjct: 69 CSQPTSSDVFPVFFLSKETTEPSYKSLYVKRPHGVFGIGNAICFVHSS--SLDSNGHSMI 126
Query: 69 RR 70
RR
Sbjct: 127 RR 128
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
0.318 0.135 0.400
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,944,939
Number of extensions: 611482
Number of successful extensions: 497
Number of sequences better than 10.0: 1
Number of HSP's gapped: 497
Number of HSP's successfully gapped: 24
Length of query: 135
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,078,804
Effective search space: 339782592
Effective search space used: 339782592
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 (21.7 bits)
S2: 53 (24.2 bits)