RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6412
(181 letters)
>gnl|CDD|220715 pfam10358, NT-C2, N-terminal C2 in EEIG1 and EHBP1 proteins. This
version of the C2 domain was initally identified in the
vertebrate estrogen early-induced gene 1 (EEIG1), and
its Drosophila ortholog required for uptake of dsRNA via
the endocytotic machinery to induce RNAi silencing. It
is also in C.elegans ortholog Sym-3 (SYnthetic lethal
with Mec-3) and the mammalian protein EHBP1 (EH domain
Binding Protein-1) that regulates endocytotic recycling
and two plant proteins, RPG that regulates
Rhizobium-directed polar growth and PMI1 (Plastid
Movement Impaired 1) that is essential for intracellular
movement of chloroplasts in response to blue light.
Length = 142
Score = 98.9 bits (247), Expect = 6e-27
Identities = 42/154 (27%), Positives = 70/154 (45%), Gaps = 12/154 (7%)
Query: 12 NKRAAKFQFTASFHQLILESTSKWTPSKLSIVWTRRSRRVVTEPMLWEPTMTDPLRGVVV 71
K+ KFQF S H+L +L + W R ++ + + G V
Sbjct: 1 KKKKVKFQFDLSIHELQNVPLV---NGELFVKWKRGDKKGNS----GTTSKALVNNGRAV 53
Query: 72 WAVPENKTISVTLFKDPRNHELEDKEWTFIIEDISSGGKRRPLATAVLNMNKYASVDSTQ 131
W E +I TLF D + + E K TF++ ++ GK++ L A +++ +YA+
Sbjct: 54 W--NEEFSIPCTLFVDKKGGKFEPKLLTFVVYKVTKKGKKKVLGKADIDLAEYANSKEPT 111
Query: 132 HQMNLEFKPCTKKIVSATLDLTLSCVFLREGKAT 165
+ L K C+KK +ATL +T+S + L E
Sbjct: 112 TR-RLLLKKCSKK--NATLSITISLLPLSEDPND 142
>gnl|CDD|187684 cd09626, DOMON_glucodextranase_like, DOMON-like domain of various
glycoside hydrolases. This DOMON-like domain is found
at the C-terminus of various bacterial proteins that
play roles in metabolizing carbohydrates, such as
glucodextranase (hydrolyzes alpha-1,6-glucosidic
linkages of dextran from the non-reducing end), glucan
alpha-1,4-glucosidase, pullulanase (degrades pullulan, a
polysaccharide built from maltotriose units),
arabinogalactan endo-1,4-beta-galactosidase, and others.
Consequently, the DOMON-like domains in this family
co-occur with catalytic domains from various glycosyl
hydrolase families. The precise function of the DOMON
domains in these proteins is not clear, they may be
involved in interactions with carbohydrates.
Length = 220
Score = 28.4 bits (64), Expect = 1.6
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 10/64 (15%)
Query: 59 EPTMTDPLRGVVVWAVPENKTISVTLFKDPRNHELED--KEWTFII----EDISSGGKRR 112
E + D L V+A P+ TI+VT+ K L D W + + +D R
Sbjct: 115 EESAADLLAAPSVYADPDGNTITVTVPKK----LLGDNLASWRYYVLVGSQDGFGPDGIR 170
Query: 113 PLAT 116
P+A
Sbjct: 171 PVAP 174
>gnl|CDD|223059 PHA03367, PHA03367, single-stranded DNA binding protein;
Provisional.
Length = 1115
Score = 28.8 bits (65), Expect = 1.7
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 102 IEDISSGGKRRPLATAVLNMNKYASV 127
E +++ K RP+ T L +NKY V
Sbjct: 896 RESVATVFKSRPIVTVPLVVNKYTGV 921
>gnl|CDD|239798 cd04270, ZnMc_TACE_like, Zinc-dependent metalloprotease; TACE_like
subfamily. TACE, the tumor-necrosis factor-alpha
converting enzyme, releases soluble TNF-alpha from
transmembrane pro-TNF-alpha.
Length = 244
Score = 27.0 bits (60), Expect = 5.3
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 124 YASVDSTQHQMNLEFKPCTKKIVSATLD 151
YA S + N +F PC+KK +S L+
Sbjct: 203 YARATSGDKENNKKFSPCSKKSISKVLE 230
>gnl|CDD|187651 cd08947, NmrA_TMR_like_SDR_a, NmrA (a transcriptional regulator),
HSCARG (an NADPH sensor), and triphenylmethane reductase
(TMR) like proteins, atypical (a) SDRs. Atypical SDRs
belonging to this subgroup include NmrA, HSCARG, and
TMR, these proteins bind NAD(P) but they lack the usual
catalytic residues of the SDRs. Atypical SDRs are
distinct from classical SDRs. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. TMR,
an NADP-binding protein, lacks the active site residues
of the SDRs but has a glycine rich NAD(P)-binding motif
that matches the extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 224
Score = 27.1 bits (60), Expect = 5.5
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 25 HQLILESTSKWTPSKLSIVWTRRSRRVVT-EPM 56
+ L S +WTP +L+ +R + V +P+
Sbjct: 192 KTINLVSNCRWTPDELAAALSRVLGKKVVHQPV 224
>gnl|CDD|216728 pfam01828, Peptidase_A4, Peptidase A4 family.
Length = 208
Score = 26.1 bits (58), Expect = 8.7
Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 10/60 (16%)
Query: 61 TMTDPLRGVVVWAVPENKTI--SVT-LFKDPRNHEL--EDKEWTFIIEDISSGGKRRPLA 115
T T P G A ENK+ +VT P L ++ EW I+ED SG PLA
Sbjct: 102 TATSPTSGT---ATIENKSTGQTVTKTLSAPSTATLCGQNAEW--IVEDFESGDSLVPLA 156
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
0.319 0.129 0.388
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,839,406
Number of extensions: 766045
Number of successful extensions: 543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 541
Number of HSP's successfully gapped: 9
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
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 (21.8 bits)
S2: 56 (25.4 bits)