RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2288
(247 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 38.9 bits (91), Expect = 6e-05
Identities = 17/26 (65%), Positives = 21/26 (80%)
Query: 79 SLKTHSRIHTGEKPFRCSVCGKSFSQ 104
+L+ H R HTGEKP++C VCGKSFS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 36.6 bits (85), Expect = 4e-04
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 163 DLQRHQRSHEGVKPFRCEYCDKTFTR 188
+L+RH R+H G KP++C C K+F+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 28.1 bits (63), Expect = 0.40
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 108 LSSHLAVHAGVKPHICKQCGHAFTQ 132
L H+ H G KP+ C CG +F+
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.0 bits (60), Expect = 0.95
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 192 MKEHLNRHKGVQPYSCSHCDKTF 214
++ H+ H G +PY C C K+F
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSF 24
Score = 25.0 bits (55), Expect = 4.0
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 136 LRLHEMRHGNIRHFACNVCPFKFTT 160
LR H H + + C VC F++
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 24.3 bits (53), Expect = 8.7
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 52 LNKHVEEHSTLGKFTCTVCKKVFNN 76
L +H+ H+ + C VC K F++
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 40.8 bits (95), Expect = 4e-04
Identities = 43/189 (22%), Positives = 62/189 (32%), Gaps = 35/189 (18%)
Query: 64 KFTCTVCKKVFNNIKSLKTHSR--IHTGE--KPFRC--SVCGKSFSQRGILSSHLAVHAG 117
C F+ L H R H+GE KPF C S+CGK FS+ L H+ +H
Sbjct: 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTS 348
Query: 118 VKPHICK--QCGHAFTQKSQLRLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGVK 175
+ P K F+ + + + K
Sbjct: 349 ISPAKEKLLNSSSKFSPLLNNEPPQSLQ-----------------------QYKDLKNDK 385
Query: 176 PFRCEY--CDKTFTRQIIMKEHLNRHKGVQPYSC--SHCDKTFFDAQSLNKHKLSHKTSA 231
C + F R + H+ H +PY+C C K+F +L HK H A
Sbjct: 386 KSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHA 445
Query: 232 DPISSAKGS 240
+ S S
Sbjct: 446 PLLCSILKS 454
Score = 32.7 bits (74), Expect = 0.18
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 70 CKKVFNNIKSLKTHSRIHTGEKPFRCSVCGKSFSQRGILSSH 111
C F+ ++ L H R HTGEKP +CS G S L
Sbjct: 39 CTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELS 80
Score = 32.0 bits (72), Expect = 0.31
Identities = 27/90 (30%), Positives = 35/90 (38%), Gaps = 2/90 (2%)
Query: 149 FACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEY--CDKTFTRQIIMKEHLNRHKGVQPYS 206
+C C F+ L RH RSH G KP +C Y CDK+F+R + + HL H
Sbjct: 34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDL 93
Query: 207 CSHCDKTFFDAQSLNKHKLSHKTSADPISS 236
S S + S S D
Sbjct: 94 NSKSLPLSNSKASSSSLSSSSSNSNDNNLL 123
Score = 30.0 bits (67), Expect = 1.2
Identities = 22/70 (31%), Positives = 28/70 (40%), Gaps = 6/70 (8%)
Query: 144 GNIRHFACNVCPFKFTTKSDLQRHQRSH----EGVKPFRC--EYCDKTFTRQIIMKEHLN 197
G C F+ S L RH RS E +KPF C C K F+R +K H+
Sbjct: 285 GFSLPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHIL 344
Query: 198 RHKGVQPYSC 207
H + P
Sbjct: 345 LHTSISPAKE 354
Score = 30.0 bits (67), Expect = 1.3
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 175 KPFRCEYCDKTFTRQIIMKEHLNRHKGVQPYSCSH--CDKTFFDAQSLNKHKLSHKTSAD 232
+P C C +F+R + H+ H G +P CS+ CDK+F L++H +H +
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPS 91
Query: 233 PISSAKGSK 241
++S
Sbjct: 92 DLNSKSLPL 100
Score = 28.1 bits (62), Expect = 4.5
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 65 FTCTVCKKVFNNIKSLKTHSRIHTGEKPFRCSVCGKSFSQRGILSSHLAV 114
C K FN +L H +IHT P CS+ KSF + LS+H
Sbjct: 419 CKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSIL-KSFRRDLDLSNHGKD 467
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 29.4 bits (66), Expect = 0.12
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 149 FACNVCPFKFTTKSDLQRHQRSH 171
+ C C F +KS L+ H R+H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 28.2 bits (63), Expect = 0.33
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 205 YSCSHCDKTFFDAQSLNKHKLSH 227
Y C C K F +L +H +H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 0.78
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 65 FTCTVCKKVFNNIKSLKTHSRIH 87
+ C C KVF + +L+ H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.3 bits (58), Expect = 1.7
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 121 HICKQCGHAFTQKSQLRLHEMRH 143
+ C +CG F KS LR H H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.3 bits (58), Expect = 1.8
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 177 FRCEYCDKTFTRQIIMKEHLNRH 199
+RC C K F + ++EH+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 2.6
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 93 FRCSVCGKSFSQRGILSSHLAVH 115
+RC CGK F + L H+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 33.2 bits (75), Expect = 0.13
Identities = 20/81 (24%), Positives = 31/81 (38%), Gaps = 11/81 (13%)
Query: 117 GVKPHICK--QCGHAFTQKSQLRLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGV 174
KP+ C C + ++ L+ H M HG+ K ++
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYH-MLHGH--------QNQKLHENPSPEKMNIFSAKD 396
Query: 175 KPFRCEYCDKTFTRQIIMKEH 195
KP+RCE CDK + +K H
Sbjct: 397 KPYRCEVCDKRYKNLNGLKYH 417
Score = 28.5 bits (63), Expect = 3.6
Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 21/73 (28%)
Query: 173 GVKPFRCEY--CDKTFTRQIIMKEH-LNRHKGV------------------QPYSCSHCD 211
KP++C C+K + Q +K H L+ H+ +PY C CD
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD 405
Query: 212 KTFFDAQSLNKHK 224
K + + L H+
Sbjct: 406 KRYKNLNGLKYHR 418
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 32.7 bits (74), Expect = 0.15
Identities = 44/171 (25%), Positives = 61/171 (35%), Gaps = 32/171 (18%)
Query: 57 EEHSTLGKFTC--TVCKKVFNNIKSLKTHSRIHTGEKPFRCSVCGKS----------FSQ 104
+E L F C + C + ++K LK H + G CS C + F
Sbjct: 144 DEMEDLLSFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRS 201
Query: 105 RGILSSHLAV---HAGVKPH-ICKQCGHAFTQKSQLRLHEMRHGNIRHFACNVC------ 154
L H G K H +C C F +LR RH +RH AC++C
Sbjct: 202 ST-LRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELR----RHCRLRHEACHICDMVGPI 256
Query: 155 -PFKFTTKSDLQRHQRSHEGVKPFRCEYCDK--TFTRQIIMKEHLNRHKGV 202
F + DL+ H R+ F+ K F + EHL R V
Sbjct: 257 RYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKV 307
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 31.4 bits (71), Expect = 0.15
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 61 TLGKFTCTVCKKVFNNIKSLKTHSRIHTGEKPFRCSVCGKSFSQRGILSSHL 112
+ + C +C F++ SLK H R K C VCGK F H+
Sbjct: 70 AVSPYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDHV 119
Score = 27.9 bits (62), Expect = 2.5
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 146 IRHFACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEYCDKTFTRQIIMKEHL 196
+ + C +C F++ L++H R E K C C K F +H+
Sbjct: 71 VSPYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDHV 119
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys. The
C2H2 zinc finger is composed of two short beta strands
followed by an alpha helix. The amino terminal part of
the helix binds the major groove in DNA binding zinc
fingers. The accepted consensus binding sequence for Sp1
is usually defined by the asymmetric hexanucleotide core
GGGCGG but this sequence does not include, among others,
the GAG (=CTC) repeat that constitutes a high-affinity
site for Sp1 binding to the wt1 promoter.
Length = 22
Score = 28.9 bits (65), Expect = 0.20
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 151 CNVCPFKFTTKSDLQRHQRSH 171
C C F+ KS+L+RH R+H
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
Score = 26.2 bits (58), Expect = 1.6
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 206 SCSHCDKTFFDAQSLNKHKLSH 227
C C K+F +L +H +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.2 bits (58), Expect = 1.8
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 122 ICKQCGHAFTQKSQLRLHEMRH 143
C CG +F++KS L+ H H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.0 bits (55), Expect = 5.2
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 66 TCTVCKKVFNNIKSLKTHSRIH 87
C C K F+ +LK H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|217213 pfam02748, PyrI_C, Aspartate carbamoyltransferase regulatory chain,
metal binding domain. The regulatory chain is involved
in allosteric regulation of aspartate
carbamoyltransferase. The C-terminal metal binding
domain has a rubredoxin-like fold and provides the
interface with the catalytic chain.
Length = 52
Score = 28.4 bits (64), Expect = 0.53
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 11/36 (30%)
Query: 169 RSHEGVKP-----------FRCEYCDKTFTRQIIMK 193
++E VK RC+YC+K + I+
Sbjct: 17 NTNEPVKSRFIVVSKEPLKLRCKYCEKVISEDEILS 52
>gnl|CDD|234859 PRK00893, PRK00893, aspartate carbamoyltransferase regulatory
subunit; Reviewed.
Length = 152
Score = 30.1 bits (69), Expect = 0.62
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 177 FRCEYCDKTFTRQIIMK 193
RC+YC+K F+ I+++
Sbjct: 135 LRCKYCEKEFSEDIVLE 151
>gnl|CDD|223915 COG0846, SIR2, NAD-dependent protein deacetylases, SIR2 family
[Transcription].
Length = 250
Score = 30.7 bits (70), Expect = 0.62
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 137 RLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEYCDKTFTR 188
+ E+ HG+++ C+ C ++ D+ + RC C R
Sbjct: 112 NVIEL-HGSLKRVRCSKCGNQY-YDEDVIKFIEDGL---IPRCPKCGGPVLR 158
>gnl|CDD|216902 pfam02146, SIR2, Sir2 family. This region is characteristic of
Silent information regulator 2 (Sir2) proteins, or
sirtuins. These are protein deacetylases that depend on
nicotine adenine dinucleotide (NAD). They are found in
many subcellular locations, including the nucleus,
cytoplasm and mitochondria. Eukaryotic forms play in
important role in the regulation of transcriptional
repression. Moreover, they are involved in microtubule
organisation and DNA damage repair processes.
Length = 177
Score = 29.9 bits (68), Expect = 0.79
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 137 RLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEYC 182
++ E+ HG+ C C K+T L + K +C+ C
Sbjct: 94 KVVEL-HGSFAKARCVSCHKKYTG-ETLPERIDAA---KVPKCDKC 134
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 30.5 bits (69), Expect = 0.92
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 139 HEMRHGNIRHFACNVCPFKFTTKSDLQRHQRS 170
+ N + CNVC +F++ L HQR+
Sbjct: 64 KKATPINPSSYVCNVCMAEFSSMDQLAEHQRT 95
Score = 29.7 bits (67), Expect = 1.7
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 110 SHLAVHAGVKPHICKQCGHAFTQKSQLRLHE 140
S A ++C C F+ QL H+
Sbjct: 63 SKKATPINPSSYVCNVCMAEFSSMDQLAEHQ 93
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 26.8 bits (59), Expect = 1.00
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 149 FACNVCPFKFTTKSDLQRHQRSH 171
F C +C F++K L+RH R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 25.3 bits (55), Expect = 4.1
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 205 YSCSHCDKTFFDAQSLNKHKLSHK 228
+ C C K+F +L +H H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.9 bits (54), Expect = 5.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 177 FRCEYCDKTFTRQIIMKEHLNRHK 200
F+C C K+F+ + +K HL +H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.5 bits (53), Expect = 8.0
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 65 FTCTVCKKVFNNIKSLKTHSRIH 87
F C +C K F++ +LK H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|220087 pfam08996, zf-DNA_Pol, DNA Polymerase alpha zinc finger. The DNA
Polymerase alpha zinc finger domain adopts an
alpha-helix-like structure, followed by three turns, all
of which involve proline. The resulting motif is a
helix-turn-helix motif, in contrast to other zinc finger
domains, which show anti-parallel sheet and helix
conformation. Zinc binding occurs due to the presence of
four cysteine residues positioned to bind the metal
centre in a tetrahedral coordination geometry. Function
of this domain is uncertain: it has been proposed that
the zinc finger motif may be an essential part of the
DNA binding domain.
Length = 187
Score = 29.2 bits (66), Expect = 1.3
Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 7/66 (10%)
Query: 159 TTKSDLQRHQRSHEGVKPFRCEYCDKTFTRQIIMKEHLNRHK--GVQPYSCSHCDKTFFD 216
+ +D +R + +C C F + I R G+Q CS C+
Sbjct: 3 SQITDSERFRDCARLK--LKCPSCGTEFPFEGIFASSGERVTPSGLQ---CSKCNALIPL 57
Query: 217 AQSLNK 222
Q +N+
Sbjct: 58 LQIVNQ 63
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a
zinc-finger domain with the CxxCx(12)Hx(6)H motif,
found in multiple copies in a wide range of proteins
from plants to metazoans. Some member proteins,
particularly those from plants, are annotated as being
RNA-binding.
Length = 25
Score = 25.9 bits (58), Expect = 2.0
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 2/25 (8%)
Query: 65 FTCTVCKKVFNNIKSLKTH--SRIH 87
F C +C F + LK+H + H
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGKKH 25
Score = 24.4 bits (54), Expect = 8.6
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 177 FRCEYCDKTFTRQIIMKEHLN 197
F CE C+ TFT + +K HL
Sbjct: 1 FYCELCNVTFTSESQLKSHLR 21
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 26.0 bits (58), Expect = 2.0
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 65 FTCTVCKKVFNNIKSLKTHSRIH 87
TC VC K F+++++L H + H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus, particularly
the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 26.0 bits (58), Expect = 2.4
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 204 PYSCSHCDKTFFDAQSLNKHKLSHK 228
+ C CDK F +L H S K
Sbjct: 1 QFYCVACDKYFKSENALENHLKSKK 25
Score = 25.6 bits (57), Expect = 2.9
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 64 KFTCTVCKKVFNNIKSLKTH 83
+F C C K F + +L+ H
Sbjct: 1 QFYCVACDKYFKSENALENH 20
Score = 25.2 bits (56), Expect = 3.8
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 176 PFRCEYCDKTFTRQIIMKEHLN--RHK 200
F C CDK F + ++ HL +HK
Sbjct: 1 QFYCVACDKYFKSENALENHLKSKKHK 27
>gnl|CDD|238698 cd01407, SIR2-fam, SIR2 family of proteins includes silent
information regulator 2 (Sir2) enzymes which catalyze
NAD+-dependent protein/histone deacetylation, where the
acetyl group from the lysine epsilon-amino group is
transferred to the ADP-ribose moiety of NAD+, producing
nicotinamide and the novel metabolite
O-acetyl-ADP-ribose. Sir2 proteins, also known as
sirtuins, are found in all eukaryotes and many archaea
and prokaryotes and have been shown to regulate gene
silencing, DNA repair, metabolic enzymes, and life span.
The most-studied function, gene silencing, involves the
inactivation of chromosome domains containing key
regulatory genes by packaging them into a specialized
chromatin structure that is inaccessible to DNA-binding
proteins. The oligomerization state of Sir2 appears to
be organism-dependent, sometimes occurring as a monomer
and sometimes as a multimer.
Length = 218
Score = 28.7 bits (65), Expect = 2.5
Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 137 RLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEYC 182
++ E+ HG++ C C ++ Q + + RC C
Sbjct: 99 KVIEL-HGSLFRVRCTKCGKEY----PRDELQADIDREEVPRCPKC 139
Score = 28.3 bits (64), Expect = 3.5
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 56 VEEHSTLGKFTCTVCKKVFNNIKSLKTHSRIHTGEKPFRCSVCG 99
+E H +L + CT C K + + R E+ RC CG
Sbjct: 101 IELHGSLFRVRCTKCGKEYPRDELQADIDR----EEVPRCPKCG 140
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 29.0 bits (66), Expect = 2.6
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 6/39 (15%)
Query: 88 TGEKPFRCSVCGKSFSQRGILSSHLAVHAGVKPHICKQC 126
+K CS CGKS + L AG +IC +C
Sbjct: 5 DSKKLLYCSFCGKSQHEVRKLI------AGPGVYICDEC 37
>gnl|CDD|234777 PRK00481, PRK00481, NAD-dependent deacetylase; Provisional.
Length = 242
Score = 27.8 bits (63), Expect = 4.4
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 9/46 (19%)
Query: 137 RLHEMRHGNIRHFACNVCPFKFTTKSDLQRHQRSHEGVKPFRCEYC 182
+ E+ HG++ C C + L+ +P RC C
Sbjct: 112 NVIEL-HGSLLRARCTKCGQTYDLDEYLKP--------EPPRCPKC 148
Score = 27.5 bits (62), Expect = 5.4
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 9/48 (18%)
Query: 53 NKHVEE-HSTLGKFTCTVCKKVFNNIKSLKTHSRIHTGEKPFRCSVCG 99
+K+V E H +L + CT C + ++ + LK +P RC CG
Sbjct: 110 SKNVIELHGSLLRARCTKCGQTYDLDEYLK--------PEPPRCPKCG 149
Score = 27.5 bits (62), Expect = 5.5
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 93 FRCSVCGKSFSQRGILSSHLAVHAGVKPHICKQCG 127
RC+ CG+++ L +P C +CG
Sbjct: 123 ARCTKCGQTYDLDEYLKP--------EPPRCPKCG 149
>gnl|CDD|214336 CHL00018, rpoC1, RNA polymerase beta' subunit.
Length = 663
Score = 28.3 bits (64), Expect = 4.4
Identities = 22/84 (26%), Positives = 30/84 (35%), Gaps = 27/84 (32%)
Query: 70 CKKVFNNIKSLKTHSRIHTGEKPFRCSVCGKSFSQRGILSSHLAVHAGVKPHICKQCGHA 129
C+++F IKS CG P C+QCG
Sbjct: 57 CERIFGPIKSGICA--------------CGNYRVIGD---------EKEDPKFCEQCGVE 93
Query: 130 FTQKSQLRLHEMRHGNIRHFACNV 153
FT S++R + M G I+ AC V
Sbjct: 94 FTD-SRVRRYRM--GYIK-LACPV 113
>gnl|CDD|150637 pfam09986, DUF2225, Uncharacterized protein conserved in bacteria
(DUF2225). This domain, found in various hypothetical
bacterial proteins, has no known function.
Length = 214
Score = 27.6 bits (62), Expect = 5.5
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 15/59 (25%)
Query: 90 EKPFRCSVCGKSFSQRGILSSHLAV----------HAGVKPHI-----CKQCGHAFTQK 133
+K C VC F + + SS L + + G+ P+ C CG+A +
Sbjct: 3 DKKIVCPVCNNEFKTKKVKSSGLRLIKRDSDFCIKYKGINPYFYDVWVCPHCGYAAFES 61
>gnl|CDD|224695 COG1781, PyrI, Aspartate carbamoyltransferase, regulatory subunit
[Nucleotide transport and metabolism].
Length = 153
Score = 27.2 bits (61), Expect = 5.8
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 177 FRCEYCDKTFTRQII 191
RC+YC+KTF+ +
Sbjct: 136 LRCKYCEKTFSEDEV 150
>gnl|CDD|239134 cd02669, Peptidase_C19M, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 440
Score = 27.3 bits (61), Expect = 9.5
Identities = 11/22 (50%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 95 CSVCGKSFSQRGILSSHLAVHA 116
C VCGK F RG SH H+
Sbjct: 31 CLVCGKYFQGRG-KGSHAYTHS 51
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
0.323 0.133 0.418
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,291,992
Number of extensions: 954129
Number of successful extensions: 1548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1525
Number of HSP's successfully gapped: 123
Length of query: 247
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 153
Effective length of database: 6,768,326
Effective search space: 1035553878
Effective search space used: 1035553878
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.2 bits)