RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14653
(191 letters)
>gnl|CDD|119367 cd01615, CIDE_N, CIDE_N domain, found at the N-terminus of the
CIDE (cell death-inducing DFF45-like effector)
proteins, as well as CAD nuclease (caspase-activated
DNase/DNA fragmentation factor, DFF40) and its
inhibitor, ICAD(DFF45). These proteins are associated
with the chromatin condensation and DNA fragmentation
events of apoptosis; the CIDE_N domain is thought to
regulate the activity of ICAD/DFF45, and the CAD/DFF40
and CIDE nucleases during apoptosis. The CIDE-N domain
is also found in the FSP27/CIDE-C protein.
Length = 78
Score = 113 bits (285), Expect = 3e-33
Identities = 41/77 (53%), Positives = 54/77 (70%)
Query: 6 QRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTL 65
RP+K+ D R RK GV ASSLEE+ KA +KL S + ++LE DGTE+D+E+YF TL
Sbjct: 2 LRPFKVCDSDRSRKKGVAASSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTL 61
Query: 66 ENNTTLMVLFDNEKWTP 82
+NT LM+L +KWTP
Sbjct: 62 PDNTVLMLLEPGQKWTP 78
>gnl|CDD|128562 smart00266, CAD, Domains present in proteins implicated in
post-mortem DNA fragmentation.
Length = 74
Score = 86.6 bits (215), Expect = 7e-23
Identities = 36/74 (48%), Positives = 49/74 (66%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
RP+K+ D+ R + GV ASSLEE+ K DKL+ + ++LE DGT +D+E+YF TL
Sbjct: 1 RPFKVRDHDRNVRKGVAASSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTLP 60
Query: 67 NNTTLMVLFDNEKW 80
+NT LM L EKW
Sbjct: 61 DNTELMALEKGEKW 74
>gnl|CDD|202090 pfam02017, CIDE-N, CIDE-N domain. This domain is found in CAD
nuclease, and ICAD, the inhibitor of CAD nuclease. The
two proteins interact through this domain.
Length = 78
Score = 86.6 bits (215), Expect = 9e-23
Identities = 35/78 (44%), Positives = 48/78 (61%)
Query: 5 SQRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCT 64
+P+K+ D+ R K GV ASSL+E+ K D L + ++LE DGTE+D EDYF T
Sbjct: 1 PPKPFKVRDHDRRIKKGVAASSLQELLSKVCDILQLPDGLVTLVLEEDGTEVDTEDYFQT 60
Query: 65 LENNTTLMVLFDNEKWTP 82
L +NT L+ L +KW P
Sbjct: 61 LPDNTELVALTSGQKWAP 78
>gnl|CDD|119372 cd06539, CIDE_N_A, CIDE_N domain of CIDE-A proteins. The CIDE_N
(cell death-inducing DFF45-like effector, N-terminal)
domain is found at the N-terminus of the CIDE (cell
death-inducing DFF45-like effector) proteins. These
proteins are associated with the chromatin condensation
and DNA fragmentation events of apoptosis; the CIDE_N
domain is thought to regulate the activity of the
CAD/DFF40, ICAD/DFF45, and CIDE nucleases during
apoptosis. The CIDE protein family includes 3 members:
CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence
similarity with DFF40 and DFF45, the CIDE proteins were
initially characterized as mitochondrial activators of
apoptosis. However, strong metabolic phenotypes of mice
lacking CIDE-A and CIDE-B indicated that this family
may play critical roles in energy balance.
Length = 78
Score = 74.6 bits (183), Expect = 3e-18
Identities = 34/77 (44%), Positives = 51/77 (66%)
Query: 6 QRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTL 65
RP+++ ++ R + GV+ASSL+E+ K D L TS + ++LE DGT +D E++F TL
Sbjct: 2 ARPFRVSNHDRSSRRGVMASSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTL 61
Query: 66 ENNTTLMVLFDNEKWTP 82
+NT MVL +KWTP
Sbjct: 62 GDNTHFMVLEKGQKWTP 78
>gnl|CDD|119369 cd06536, CIDE_N_ICAD, CIDE_N domain of ICAD. The CIDE_N (cell
death-inducing DFF45-like effector, N-terminal) domain
is found at the N-terminus of the CAD nuclease
(caspase-activated DNase/DNA fragmentation factor,
DFF40) and its inhibitor, ICAD (DFF45). These proteins
are associated with the chromatin condensation and DNA
fragmentation events of apoptosis; the CIDE_N domain is
thought to regulate the activity of the CAD/DFF40 and
ICAD/DFF45 during apoptosis. In normal cells, DFF
exists in the nucleus as a heterodimer composed of
CAD/DFF40 as a latent nuclease and its chaperone and
inhibitor subunit ICAD/DFF45. Apoptotic activation of
caspase-3 results in the cleavage of DFF45/ICAD and
release of active DFF40/CAD nuclease.
Length = 80
Score = 68.7 bits (168), Expect = 7e-16
Identities = 32/79 (40%), Positives = 51/79 (64%), Gaps = 2/79 (2%)
Query: 6 QRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLS--NTSDNIKILLESDGTEIDEEDYFC 63
+P + + R+++ GV ASSLEE++ KA + L ++S I ++L DGT +++EDYF
Sbjct: 2 LKPCVVCNVSRQKQHGVAASSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFL 61
Query: 64 TLENNTTLMVLFDNEKWTP 82
L NT ++L +NEKW P
Sbjct: 62 CLPPNTKFVLLAENEKWAP 80
>gnl|CDD|119370 cd06537, CIDE_N_B, CIDE_N domain of CIDE-B proteins. The CIDE_N
(cell death-inducing DFF45-like effector, N-terminal)
domain is found at the N-terminus of the CIDE (cell
death-inducing DFF45-like effector) proteins. These
proteins are associated with the chromatin condensation
and DNA fragmentation events of apoptosis; the CIDE_N
domain is thought to regulate the activity of the
CAD/DFF40, ICAD/DFF45 and CIDE nucleases during
apoptosis. The CIDE protein family includes 3 members:
CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence
similarity with DFF40 and DFF45, CIDE proteins were
initially characterized as mitochondrial activators of
apoptosis. However, strong metabolic phenotypes of mice
lacking CIDE-A and CIDE-B indicated that this family
may play critical roles in energy balance.
Length = 81
Score = 67.2 bits (164), Expect = 3e-15
Identities = 33/79 (41%), Positives = 52/79 (65%), Gaps = 1/79 (1%)
Query: 6 QRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTL 65
QRP+++ D+KR + G+ A+SL+E+ KA + L S + ++LE DGT +D ED+F L
Sbjct: 2 QRPFRVCDHKRTVRKGLTAASLQELLAKALETLL-LSGVLTLVLEEDGTAVDSEDFFELL 60
Query: 66 ENNTTLMVLFDNEKWTPVK 84
E++T LMVL + W+P
Sbjct: 61 EDDTCLMVLEQGQSWSPKS 79
>gnl|CDD|119371 cd06538, CIDE_N_FSP27, CIDE_N domain of FSP27 proteins. The
CIDE-N (cell death-inducing DFF45-like effector,
N-terminal) domain is found in the FSP27/CIDE-C
protein, which has been identified as a n adipocyte
lipid droplet protein that negatively regulates
lipolysis and promotes triglyceride accumulation. The
CIDE protein family includes 3 members: CIDE-A, CIDE-B,
and FSP27(CIDE-C). Based on sequence similarity with
DFF40 and DFF45, CIDE proteins were initially
characterized as mitochondrial activators of apoptosis.
The CIDE-N domain of FSP27 is sufficient to increase
apoptosis in vitro when overexpressed.
Length = 79
Score = 66.0 bits (161), Expect = 9e-15
Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
RP+++ + R + G++A SLE++ K D L ++L+ DGT +D E++F L
Sbjct: 3 RPFRVSNADRSLRKGIMADSLEDLLNKVLDAL-LLDCISSLVLDEDGTGVDTEEFFQALA 61
Query: 67 NNTTLMVLFDNEKWTP 82
+NT MVL +KW P
Sbjct: 62 DNTVFMVLGKGQKWKP 77
>gnl|CDD|119368 cd06535, CIDE_N_CAD, CIDE_N domain of CAD nuclease. The CIDE_N
(cell death-inducing DFF45-like effector, N-terminal)
domain is found at the N-terminus of CAD nuclease
(caspase-activated DNase/DNA fragmentation factor,
DFF40) and its inhibitor, ICAD(DFF45). These proteins
are associated with the chromatin condensation and DNA
fragmentation events of apoptosis; the CIDE_N domain is
thought to regulate the activity of CAD/DFF40 and
ICAD/DFF45 during apoptosis. In normal cells, DFF
exists in the nucleus as a heterodimer composed of
CAD/DFF40 as a latent nuclease and its chaperone and
inhibitor subunit ICAD/DFF45. Apoptotic activation of
caspase-3 results in the cleavage of DFF45/ICAD and the
release of active DFF40/CAD nuclease.
Length = 77
Score = 55.1 bits (133), Expect = 1e-10
Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
+ KI +K GV A +L+E+ RK L ++ L DGTE+ E+YF TL
Sbjct: 3 KCVKIRSLNSAQKYGVAAKNLKELLRKGCRLLQLPCAGSRLCLYEDGTEV-TEEYFPTLP 61
Query: 67 NNTTLMVLFDNEKW 80
+NT L++L + W
Sbjct: 62 DNTELVLLTPGQSW 75
>gnl|CDD|239440 cd03324, rTSbeta_L-fuconate_dehydratase, Human rTS beta is encoded
by the rTS gene which, through alternative RNA splicing,
also encodes rTS alpha whose mRNA is complementary to
thymidylate synthase mRNA. rTS beta expression is
associated with the production of small molecules that
appear to mediate the down-regulation of thymidylate
synthase protein by a novel intercellular signaling
mechanism. A member of this family, from Xanthomonas,
has been characterized to be a L-fuconate dehydratase.
rTS beta belongs to the enolase superfamily of enzymes,
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 415
Score = 34.2 bits (79), Expect = 0.029
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 12/46 (26%)
Query: 120 ELLSDMDPDNLLDIIPDKMFLNQVKEASCRFLSDKRNAQEALDLLK 165
+LL DM P+ L+ I F R+++D +EAL++L+
Sbjct: 132 KLLVDMTPEELVSCID---F---------RYITDALTPEEALEILR 165
>gnl|CDD|237924 PRK15206, PRK15206, long polar fimbrial protein LpfD; Provisional.
Length = 359
Score = 31.1 bits (70), Expect = 0.32
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 9 YKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGT 54
+K D+K +RK G VA + + ++ Q K +N SD +KI L +G
Sbjct: 232 FKATDFK-DRK-GQVAKNATKFTKELQFKCTNISDGVKIFLRIEGM 275
>gnl|CDD|236423 PRK09237, PRK09237, dihydroorotase; Provisional.
Length = 380
Score = 28.7 bits (65), Expect = 1.7
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 98 TQLLSLLQEDIGQLSLLGGQELELLSDMDPDNLLDII 134
T++L+ L +I ++ LL EL L D+D D + + +
Sbjct: 109 TRVLAFL--NISRIGLLAQDELADLEDIDADAVAEAV 143
>gnl|CDD|181690 PRK09195, gatY, tagatose-bisphosphate aldolase; Reviewed.
Length = 284
Score = 28.6 bits (64), Expect = 2.0
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 17/64 (26%)
Query: 78 EKWTPVKQFVDA------VDGSHHPLTQLLSLLQE--------DI---GQLSLLGGQELE 120
EK+ + Q V + +DGSH P Q +SL++E D+ +L LGGQE +
Sbjct: 85 EKFDDIAQKVRSGVRSVMIDGSHLPFAQNISLVKEVVDFCHRFDVSVEAELGRLGGQEDD 144
Query: 121 LLSD 124
L D
Sbjct: 145 LQVD 148
>gnl|CDD|130410 TIGR01343, hacA_fam, homoaconitate hydratase family protein. This
model represents a subfamily of proteins consisting of
aconitase, homoaconitase, 3-isopropylmalate dehydratase,
and uncharacterized proteins. The majority of the
members of this family have been designated as
3-isopropylmalate dehydratase large subunit (LeuC) in
microbial genome annotation, but the only characterized
member is Thermus thermophilus homoaconitase, an enzyme
of a non-aspartate pathway of Lys biosynthesis.
Length = 412
Score = 28.2 bits (63), Expect = 2.9
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 1 MEEESQRPYKII----DYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEI 56
++E + P+++ D + ++V + AS LE + + DN+ + E +G E+
Sbjct: 233 LKERYKEPFRVYKSDEDAEYAKEVEIDASQLEPVVAAPHN-----VDNVHPVSEVEGIEV 287
Query: 57 DE 58
D+
Sbjct: 288 DQ 289
>gnl|CDD|132268 TIGR03224, benzo_boxA, benzoyl-CoA oxygenase/reductase, BoxA
protein. Members of this protein family are BoxA, the A
component of the BoxAB benzoyl-CoA oxygenase/reductase.
This oxygen-requiring enzyme acts in an aerobic pathway
of benzoate catabolism via coenzyme A ligation. BoxA is
a homodimeric iron-sulphur-flavoprotein and acts as an
NADPH-dependent reductase for BoxB [Energy metabolism,
Other].
Length = 411
Score = 27.9 bits (62), Expect = 3.3
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 27 LEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
E+ KR QD + + ++ LL+ T I Y C L+
Sbjct: 337 PEQPKRYVQDAIRERAADVAALLKDPNTYI----YICGLK 372
>gnl|CDD|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase/S1 RNA-binding domain protein; Reviewed.
Length = 647
Score = 28.0 bits (63), Expect = 3.3
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 10 KIIDYKRERKVGVVASS---LEEIKRKAQDKLSNT 41
KII++ R+R+ VV S LEE K K +++ N+
Sbjct: 440 KIIEFNRKRRKKVVLSRKAILEEEKEKKKEETWNS 474
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 27.9 bits (63), Expect = 3.6
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 30 IKRKAQDKLSNTSDNIKILLESDGTEI 56
+ ++A +KLS +++I+ E G+E+
Sbjct: 208 VSKEAAEKLSFQDRDVEIIEEIKGSEL 234
>gnl|CDD|236363 PRK09029, PRK09029, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 458
Score = 27.9 bits (63), Expect = 3.8
Identities = 15/38 (39%), Positives = 17/38 (44%), Gaps = 7/38 (18%)
Query: 86 FVDAVDG-SHHPL--TQLLSLLQEDIGQLS----LLGG 116
A+ G +H L TQL LL LS LLGG
Sbjct: 212 LEQALAGCTHASLVPTQLWRLLDNRSEPLSLKAVLLGG 249
>gnl|CDD|236488 PRK09374, rplB, 50S ribosomal protein L2; Validated.
Length = 276
Score = 27.3 bits (62), Expect = 4.9
Identities = 10/18 (55%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 7 RPYKIIDYKRERKVGVVA 24
R Y+IID+KR K G+ A
Sbjct: 60 RKYRIIDFKR-NKDGIPA 76
>gnl|CDD|184983 PRK15022, PRK15022, ferritin-like protein; Provisional.
Length = 167
Score = 26.8 bits (59), Expect = 5.1
Identities = 23/117 (19%), Positives = 47/117 (40%), Gaps = 15/117 (12%)
Query: 67 NNTTLMVLFD---NEKWTPVKQFVDAVDGSHHPLTQLLSLLQEDIGQ----LSLLGGQE- 118
N T +M +F+ + TP+ + +D + L +L E+ Q L+ L +
Sbjct: 50 NVTQMMRMFNFMKSAGATPIVKAIDVPGEKLNSLEELFQKTLEEYEQRSSTLAQLADEAK 109
Query: 119 -------LELLSDMDPDNLLDIIPDKMFLNQVKEASCRFLSDKRNAQEALDLLKLYH 168
L L D++ + D + + L++V+ A L + Q L+++
Sbjct: 110 ALNDDSTLNFLRDLEKEQQHDGLLLQTILDEVRSAKLAGLCPVQTDQHLLNVVSHQL 166
>gnl|CDD|237612 PRK14108, PRK14108, bifunctional glutamine-synthetase
adenylyltransferase/deadenyltransferase; Provisional.
Length = 986
Score = 26.9 bits (60), Expect = 8.5
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 24/86 (27%)
Query: 99 QLLSLLQEDIGQLSLLGGQELEL-----LSDM------------DPDNLLDIIPDKMFLN 141
QL SLLQ + LSLL L + L+D+ DP +P + +L+
Sbjct: 567 QLFSLLQSNPDLLSLLV---LIMGAAPRLADIIARRPHVFDGLLDP-AFFSELPTRAYLS 622
Query: 142 QVKEASCRFLSDKRNAQEALDLLKLY 167
A FL+D + +E LD L+++
Sbjct: 623 ARLAA---FLADAGSYEEVLDRLRIF 645
>gnl|CDD|218689 pfam05681, Fumerase, Fumarate hydratase (Fumerase). This family
consists of several bacterial fumarate hydratase
proteins FumA and FumB. Fumarase, or fumarate hydratase
(EC 4.2.1.2), is a component of the citric acid cycle.
In facultative anaerobes such as Escherichia coli,
fumarase also engages in the reductive pathway from
oxaloacetate to succinate during anaerobic growth. Three
fumarases, FumA, FumB, and FumC, have been reported in
E. coli. fumA and fumB genes are homologous and encode
products of identical sizes which form thermolabile
dimers of Mr 120,000. FumA and FumB are class I enzymes
and are members of the iron-dependent hydrolases, which
include aconitase and malate hydratase. The active FumA
contains a 4Fe-4S centre, and it can be inactivated upon
oxidation to give a 3Fe-4S centre.
Length = 271
Score = 26.6 bits (60), Expect = 8.5
Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 24/76 (31%)
Query: 22 VVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYF----------CTLENNTTL 71
VVA LE NT DN ++ EI D EN + L
Sbjct: 101 VVADPLERK---------NTGDNTPAVIH---IEIVPGDELEITVAAKGGGS--ENKSKL 146
Query: 72 MVLFDNEKWTPVKQFV 87
+L ++ +K+FV
Sbjct: 147 AMLNPSDGIEGIKKFV 162
>gnl|CDD|206375 pfam14207, DpnD-PcfM, DpnD/PcfM-like protein. This family of
proteins is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 57 and 153 amino acids in
length. There are two completely conserved residues (E
and A) that may be functionally important.
Length = 48
Score = 24.5 bits (54), Expect = 8.7
Identities = 11/25 (44%), Positives = 12/25 (48%)
Query: 16 RERKVGVVASSLEEIKRKAQDKLSN 40
RKV V A S EE K D +N
Sbjct: 10 LSRKVEVEAESEEEAISKVSDMYNN 34
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
0.312 0.131 0.359
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,511,612
Number of extensions: 888201
Number of successful extensions: 813
Number of sequences better than 10.0: 1
Number of HSP's gapped: 808
Number of HSP's successfully gapped: 48
Length of query: 191
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 100
Effective length of database: 6,901,388
Effective search space: 690138800
Effective search space used: 690138800
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: 42 (21.8 bits)
S2: 56 (25.2 bits)