RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11591
(220 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 33.5 bits (77), Expect = 0.003
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 16 SLREHIMIHTGERPHVCHVCSKSFRN 41
+LR H+ HTGE+P+ C VC KSF +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.8 bits (70), Expect = 0.033
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 73 NLTVHIRTHTDEKKYMCELCGAEFAQ 98
NL H+RTHT EK Y C +CG F+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 29.3 bits (66), Expect = 0.11
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 128 NLQRHIKTHTDNSLYICEICGKDF 151
NL+RH++THT Y C +CGK F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
>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 = 31.5 bits (72), Expect = 0.019
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 60 QCNHCGRAFSDKSNLTVHIRTH 81
+C CG++FS KSNL H+RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 29.6 bits (67), Expect = 0.079
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 115 KCNYCEKVYNNPSNLQRHIKTH 136
KC C K ++ SNL+RH++TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.4 bits (56), Expect = 3.4
Identities = 11/22 (50%), Positives = 11/22 (50%)
Query: 143 ICEICGKDFGTARYLKRHKDTH 164
C CGK F LKRH TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 24.2 bits (53), Expect = 8.5
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 171 VCEVCNTGFKVKKHLTQHYKSH 192
C C F K +L +H ++H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.6 bits (64), Expect = 0.23
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 114 FKCNYCEKVYNNPSNLQRHIKTH 136
++C C KV+ + S L+ H++TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 28.2 bits (63), Expect = 0.33
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 59 HQCNHCGRAFSDKSNLTVHIRTH 81
++C CG+ F KS L H+RTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 2.3
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 142 YICEICGKDFGTARYLKRHKDTH 164
Y C CGK F + L+ H TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 24.7 bits (54), Expect = 5.6
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 170 FVCEVCNTGFKVKKHLTQHYKSH 192
+ C C FK K L +H ++H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 24.3 bits (53), Expect = 7.2
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 30 HVCHVCSKSFRNRGKLNVHYKR 51
+ C C K F+++ L H +
Sbjct: 1 YRCPECGKVFKSKSALREHMRT 22
Score = 24.3 bits (53), Expect = 7.7
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 2 FKCPQCGALLKNIWSLREHIMIH 24
++CP+CG + K+ +LREH+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|223146 COG0068, HypF, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 750
Score = 32.0 bits (73), Expect = 0.28
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 25/95 (26%)
Query: 61 CNHCGRAFSDKSNLTVHIRTHTDEKKYM-----CELCGAEFAQWATL-YNHKFTH-NDIK 113
C C D ++ ++Y+ C CG F L Y+ + T D
Sbjct: 104 CEDCLEEIFDPNS-----------RRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFP 152
Query: 114 FKCNYCEKVYNNPSNLQRHIKTHTDNSLYICEICG 148
C +C+K Y +P N + H + + C CG
Sbjct: 153 L-CPFCDKEYKDPLNRRFHAQP---IA---CPKCG 180
>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 = 31.7 bits (72), Expect = 0.30
Identities = 10/26 (38%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 59 HQCNHCGRAFSDKSNLTVHIRT-HTD 83
+ CN C FS L H RT H+
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHSI 99
Score = 27.8 bits (62), Expect = 5.9
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 30 HVCHVCSKSFRNRGKLNVHYKRVH 53
+VC+VC F + +L H + H
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTH 97
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 30.4 bits (69), Expect = 0.80
Identities = 13/64 (20%), Positives = 16/64 (25%), Gaps = 26/64 (40%)
Query: 2 FKCPQCGALLKNIWSLREHIMIHTGERPHVCHVCSKSFRNRGKLNVHYKRVHERIRTHQC 61
+CP C + L +H CH C E I C
Sbjct: 445 AECPNCDSPL----------TLHKATGQLRCHYCGY---------------QEPI-PQSC 478
Query: 62 NHCG 65
CG
Sbjct: 479 PECG 482
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 30.1 bits (68), Expect = 1.1
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 3/71 (4%)
Query: 35 CSKSFR--NRGKLNVHYKRVHERIRTHQCNHCGRAFSDKSNLTVHIRTHTDEKKYMCELC 92
C + F+ NRGK +R R+RT QC R S + T+ I + + Y +
Sbjct: 242 CVQDFKRKNRGKDLSSNQRALRRLRT-QCERAKRTLSSSTQATIEIDSLFEGIDYNVTIS 300
Query: 93 GAEFAQWATLY 103
A F + Y
Sbjct: 301 RARFEELCGDY 311
>gnl|CDD|177300 PHA00732, PHA00732, hypothetical protein.
Length = 79
Score = 28.2 bits (63), Expect = 1.1
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 11/52 (21%)
Query: 1 MFKCPQCGALLKNIWSLREHIMIHTGERPHV---CHVCSKSFRNRGKLNVHY 49
MFKCP CG +++L++H R H C VC+KS+R +LN H+
Sbjct: 1 MFKCPICGFTTVTLFALKQHA-----RRNHTLTKCPVCNKSYR---RLNQHF 44
>gnl|CDD|234859 PRK00893, PRK00893, aspartate carbamoyltransferase regulatory
subunit; Reviewed.
Length = 152
Score = 29.0 bits (66), Expect = 1.2
Identities = 8/23 (34%), Positives = 12/23 (52%), Gaps = 3/23 (13%)
Query: 105 HKFT---HNDIKFKCNYCEKVYN 124
+F IK +C YCEK ++
Sbjct: 123 SRFYVVDKEPIKLRCKYCEKEFS 145
>gnl|CDD|173623 cd00180, PKc, Catalytic domain of Protein Kinases. Protein Kinases
(PKs), catalytic (c) domain. PKs catalyze the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The PK family is part of a larger
superfamily that includes the catalytic domains of RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, phosphoinositide 3-kinase (PI3K), and
actin-fragmin kinase. PKs make up a large family of
serine/threonine kinases, protein tyrosine kinases
(PTKs), and dual-specificity PKs that phosphorylate both
serine/threonine and tyrosine residues of target
proteins. Majority of protein phosphorylation, about
95%, occurs on serine residues while only 1% occurs on
tyrosine residues. Protein phosphorylation is a
mechanism by which a wide variety of cellular proteins,
such as enzymes and membrane channels, are reversibly
regulated in response to certain stimuli. PKs often
function as components of signal transduction pathways
in which one kinase activates a second kinase, which in
turn, may act on other kinases; this sequential action
transmits a signal from the cell surface to target
proteins, which results in cellular responses. The PK
family is one of the largest known protein families with
more than 100 homologous yeast enzymes and 550 human
proteins. A fraction of PK family members are
pseudokinases that lack crucial residues for catalytic
activity. The mutiplicity of kinases allows for specific
regulation according to substrate, tissue distribution,
and cellular localization. PKs regulate many cellular
processes including proliferation, division,
differentiation, motility, survival, metabolism,
cell-cycle progression, cytoskeletal rearrangement,
immunity, and neuronal functions. Many kinases are
implicated in the development of various human diseases
including different types of cancer.
Length = 215
Score = 28.7 bits (65), Expect = 1.7
Identities = 11/66 (16%), Positives = 24/66 (36%), Gaps = 20/66 (30%)
Query: 102 LYNHKFTHNDIKFKCNYCEKVYNNPSNLQRHIKTHTDNSLYICEICGKDFGTARYLKRHK 161
L+++ H D+K P N+ + + + + DFG ++ L K
Sbjct: 108 LHSNGIIHRDLK------------PENI---LLDSDNGKVKLA-----DFGLSKLLTSDK 147
Query: 162 DTHNSV 167
++
Sbjct: 148 SLLKTI 153
>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 = 2.0
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 113 KFKCNYCEKVYNNPSNLQRHIKT 135
+F C C+K + + + L+ H+K+
Sbjct: 1 QFYCVACDKYFKSENALENHLKS 23
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 27.9 bits (62), Expect = 2.1
Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 2 FKCPQCGALLKNIWSLREHIMIHTGERPHVCHVCSKSFRNRGKLNVHYKRVH 53
+ CP C + SL++HI E VC VC K FRN H + H
Sbjct: 74 YVCPLCLMPFSSSVSLKQHI--RYTEHSKVCPVCGKEFRNTDSTLDHVCKKH 123
Score = 27.1 bits (60), Expect = 3.8
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 166 SVNTFVCEVCNTGFKVKKHLTQH--YKSHSMFIP 197
+V+ +VC +C F L QH Y HS P
Sbjct: 70 AVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCP 103
Score = 26.8 bits (59), Expect = 6.2
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 56 IRTHQCNHCGRAFSDKSNLTVHIRTHTDEKKYMCELCGAEFAQWATLYNH 105
+ + C C FS +L HIR K C +CG EF + +H
Sbjct: 71 VSPYVCPLCLMPFSSSVSLKQHIRYTEHSKV--CPVCGKEFRNTDSTLDH 118
>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 = 2.2
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 170 FVCEVCNTGFKVKKHLTQHYKSH 192
F CE+CN F + L H +
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGK 23
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 28.9 bits (64), Expect = 2.4
Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 12/83 (14%)
Query: 26 GERPHVCHV--CSKSFRNRGKLNVHYKRVHERIRTHQCNHCGRAFSDKSNLTVHIRTHTD 83
+P+ C V C+K ++N+ L H H+ + H+ +K N+
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPS-----PEKMNIFS-----AK 395
Query: 84 EKKYMCELCGAEFAQWATLYNHK 106
+K Y CE+C + L H+
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYHR 418
Score = 28.1 bits (62), Expect = 3.7
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 27 ERPHVCHVCSKSFRNRGKLNVHYKRVH 53
++P+ C VC K ++N L H K H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYHRKHSH 422
>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 = 25.7 bits (56), Expect = 2.4
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 114 FKCNYCEKVYNNPSNLQRHIKTH 136
FKC C K +++ L+RH++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 24.5 bits (53), Expect = 5.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 30 HVCHVCSKSFRNRGKLNVHYKRVH 53
C +C KSF ++ L H ++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.5 bits (53), Expect = 6.1
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 59 HQCNHCGRAFSDKSNLTVHIRTH 81
+C CG++FS K L H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|221444 pfam12156, ATPase-cat_bd, Putative metal-binding domain of cation
transport ATPase. This domain is found in bacteria,
and is approximately 90 amino acids in length. It is
found associated with pfam00403, pfam00122, pfam00702.
The cysteine-rich nature and composition suggest this
might be a cation-binding domain; most members are
annotated as being cation transport ATPases.
Length = 88
Score = 27.3 bits (61), Expect = 2.5
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 61 CNHCGRAFSDKSNLTVHIRTHTDEKKYMC 89
C HCG + T I +++ C
Sbjct: 3 CFHCGLPVPEGEPFTAEID---GQERDFC 28
>gnl|CDD|202452 pfam02892, zf-BED, BED zinc finger.
Length = 43
Score = 26.1 bits (58), Expect = 2.6
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 113 KFKCNYCEKVY---NNPSNLQRHIKT 135
K +C YC K+ SNL+RH+
Sbjct: 15 KARCKYCGKILSGGGGTSNLKRHLVR 40
>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes
for a probable ATP-dependent protease involved in both
DNA repair and degradation of proteins, peptides,
glycopeptides. Also known as sms. Residues 11-28 of the
SEED alignment contain a putative Zn binding domain.
Residues 110-117 of the seed contain a putative ATP
binding site both documented in Haemophilus and in
Listeria monocytogenes. for E.coli see ( J. BACTERIOL.
178:5045-5048(1996)) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 454
Score = 28.6 bits (64), Expect = 3.1
Identities = 6/14 (42%), Positives = 11/14 (78%)
Query: 86 KYMCELCGAEFAQW 99
K++C+ CGA+ +W
Sbjct: 7 KFVCQHCGADSPKW 20
>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 = 26.1 bits (58), Expect = 3.2
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 110 NDIKFKCNYCEKVYN 124
+K +C YCEKV +
Sbjct: 32 EPLKLRCKYCEKVIS 46
>gnl|CDD|132841 cd07202, cPLA2_Grp-IVC, Group IVC cytoplasmic phospholipase A2;
catalytic domain; Ca-independent. Group IVC cPLA2, a
small 61 kDa protein, is a single domain alpha/beta
hydrolase. It lacks a C2 domain; therefore, it has no
Ca-dependence. Group IVC cPLA2 is also referred to as
cPLA2-gamma. The cPLA2-gamma enzyme is predominantly
found in cardiac and skeletal muscles, and to a lesser
extent in the brain. Human cPLA2-gamma is approximately
30% identical to cPLA2-alpha. The catalytic domain of
cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes
the sn-2-acyl ester bond of phospholipids to release
arachidonic acid. At the active site, cPLA2 contains a
serine nucleophile through which the catalytic mechanism
is initiated. The active site is partially covered by a
solvent-accessible flexible lid. cPLA2 displays
interfacial activation as it exists in both "closed lid"
and "open lid" forms. Movement of the cPLA2 lid possibly
exposes a greater hydrophobic surface and the active
site. cPLA2 belongs to the alpha-beta hydrolase family
which is identified by a characteristic nucleophile
elbow with a consensus sequence of Sm-X-Nu-Sm (Sm =
small residue, X = any residue and Nu = nucleophile).
Includes PLA2G4C protein from human and Pla2g4c protein
from mouse.
Length = 430
Score = 28.2 bits (63), Expect = 3.4
Identities = 25/89 (28%), Positives = 32/89 (35%), Gaps = 19/89 (21%)
Query: 33 HVCSKSFRNRGKLNVHYKRVHERIRTHQCNHCGRAFSDKSNLTVHIRTHTDEKKYMCELC 92
H SK F N GKL K+ ER + G A +D + KY+C
Sbjct: 212 HFGSK-FEN-GKL---VKQEPERDLLYLRALWGSALADGEEI----------AKYIC--- 253
Query: 93 GAEFAQWATLYNHKFTHNDIKFKCNYCEK 121
W T YN + H DI K +
Sbjct: 254 -MSLWIWGTTYNFLYKHGDIADKPAMRSR 281
>gnl|CDD|236479 PRK09357, pyrC, dihydroorotase; Validated.
Length = 423
Score = 28.2 bits (64), Expect = 3.7
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 8/27 (29%)
Query: 19 EHIMI--------HTGERPHVCHVCSK 37
E +MI TG R H+CHV +
Sbjct: 209 EEVMIARDVLLAEATGARVHICHVSTA 235
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 28.3 bits (64), Expect = 3.9
Identities = 10/60 (16%), Positives = 21/60 (35%), Gaps = 3/60 (5%)
Query: 1 MFKCPQCGALLKNIWSLREHIMIHTGERPHVCHVCSKSFRNRGKLNVH--YKRVHERIRT 58
+CP CG + ++ + + C + R K+++ Y R E +
Sbjct: 638 YRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTPYSKR-KIDLKELYDRALENLGE 696
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 28.1 bits (62), Expect = 4.2
Identities = 42/179 (23%), Positives = 58/179 (32%), Gaps = 19/179 (10%)
Query: 2 FKCPQCGALLKNIWSLREHI--MIHTGE--RPHVCHV--CSKSFRNRGKLNVHYKRVHER 55
K QC L H+ + H+GE +P C C K F L H H
Sbjct: 290 IKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL-HTS 348
Query: 56 IRTHQC--NHCGRAFSDKSN-----LTVHIRTHTDEKKYMCEL--CGAEFAQWATLYNHK 106
I + + FS N + ++KK C F + + L H
Sbjct: 349 ISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHI 408
Query: 107 FTH---NDIKFKCNYCEKVYNNPSNLQRHIKTHTDNSLYICEICGKDFGTARYLKRHKD 162
TH K C K +N NL H K HT+++ +C I KD
Sbjct: 409 ITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDLDLSNHGKD 467
Score = 27.0 bits (59), Expect = 8.9
Identities = 30/142 (21%), Positives = 46/142 (32%), Gaps = 26/142 (18%)
Query: 57 RTHQCNHCGRAFSDKSNLTVHIRTHTDEKKYMCELCGAEFAQWATLYNHKFTHNDIKFKC 116
R C +C +FS +LT HIR+HT EK C G
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSG----------------------- 68
Query: 117 NYCEKVYNNPSNLQRHIKTHTDNSLYICEICGKD-FGTARYLKRHKDTHNSVNTFVCEVC 175
C+K ++ P L RH++TH +N + A + NS + +
Sbjct: 69 --CDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSNSKASSSSLSSSSSNSNDNNLLSSH 126
Query: 176 NTGFKVKKHLTQHYKSHSMFIP 197
+ + S S
Sbjct: 127 SLPPSSRDPQLPDLLSISNLRN 148
>gnl|CDD|149823 pfam08882, Acetone_carb_G, Acetone carboxylase gamma subunit.
Acetone carboxylase is the key enzyme of bacterial
acetone metabolism, catalyzing the condensation of
acetone and CO(2) to form acetoacetate.
Length = 106
Score = 26.5 bits (59), Expect = 5.5
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 141 LYICEICGKDFGTAR 155
L+IC +CG DFG AR
Sbjct: 15 LWICRVCGHDFGDAR 29
>gnl|CDD|236895 PRK11295, PRK11295, hypothetical protein; Provisional.
Length = 113
Score = 26.2 bits (58), Expect = 6.8
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 40 RNRGKLNVHYKRVHERIRTHQCNHCGRAFSDK--SNLTVHIRTH 81
+N +L Y+ ++ C C R F LTVH H
Sbjct: 6 KNYARLESGYREKALKLYPWVCGRCSREFVYSNLRELTVHHIDH 49
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 24.5 bits (54), Expect = 7.1
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 58 THQCNHCGRAFSDKSNLTVHIRTH 81
H C CG+ FS L H ++H
Sbjct: 1 VHTCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 27.3 bits (60), Expect = 7.2
Identities = 27/132 (20%), Positives = 47/132 (35%), Gaps = 27/132 (20%)
Query: 32 CHVCSKSFRNRGKLNVHYKRVHERIRTHQCNHCGRAFSD------KSNLTVHIRTHTDEK 85
CH S + +L HYK H + +C + F + S L H +E+
Sbjct: 159 CHRRCGSLK---ELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEE 215
Query: 86 KY----MCELCGAEFAQWATLYNHKFTHNDIKFKCNYCEKV-------YNNPSNLQRHIK 134
+ +C C F L H ++ C+ C+ V + + +L+ H +
Sbjct: 216 GFKGHPLCIFCKIYFYDDDELRRHCRLRHE---ACHICDMVGPIRYQYFKSYEDLEAHFR 272
Query: 135 THTDNSLYICEI 146
N+ Y C
Sbjct: 273 ----NAHYCCTF 280
>gnl|CDD|232844 TIGR00143, hypF, [NiFe] hydrogenase maturation protein HypF. A
previously described regulatory effect of HypF
mutatation is attributable to loss of activity of a
regulatory hydrogenase. A zinc finger-like region
CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported
the regulatory hypothesis. However, more recent work
(PUBMED:11375153) shows the direct effect is on the
activity of expressed hydrogenases with nickel/iron
centers, rather than on expression [Protein fate,
Protein modification and repair].
Length = 711
Score = 27.0 bits (60), Expect = 9.0
Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 9/62 (14%)
Query: 89 CELCGAEFAQWATL-YNHKFTH-NDIKFKCNYCEKVYNNPSNLQRHIKTHTDNSLYICEI 146
C CG F L Y+ + T D C C K Y +P + + H + C
Sbjct: 93 CTHCGPRFTIIEALPYDRENTSMADFPL-CPDCAKEYKDPLDRRFHAQPIA------CPR 145
Query: 147 CG 148
CG
Sbjct: 146 CG 147
>gnl|CDD|239249 cd02951, SoxW, SoxW family; SoxW is a bacterial periplasmic TRX,
containing a redox active CXXC motif, encoded by a
genetic locus (sox operon) involved in thiosulfate
oxidation. Sulfur bacteria oxidize sulfur compounds to
provide reducing equivalents for carbon dioxide fixation
during autotrophic growth and the respiratory electron
transport chain. It is unclear what the role of SoxW is,
since it has been found to be dispensable in the
oxidation of thiosulfate to sulfate. SoxW is
specifically kept in the reduced state by SoxV, which is
essential in thiosulfate oxidation.
Length = 125
Score = 26.1 bits (58), Expect = 9.2
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 116 CNYCEKV---YNNPSNLQRHIKTHTD 138
C YC+K+ Y N +Q +I+ H
Sbjct: 26 CPYCDKLKRDYLNDPAVQAYIRAHFV 51
>gnl|CDD|214567 smart00220, S_TKc, Serine/Threonine protein kinases, catalytic
domain. Phosphotransferases. Serine or
threonine-specific kinase subfamily.
Length = 254
Score = 26.7 bits (60), Expect = 10.0
Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 35/95 (36%)
Query: 80 THTDEKKYMCELCGA-EFAQWATLYNHKFTHNDIKFKCNYCEKVYNNPSNL----QRHIK 134
+ + + Y+ ++ A E+ L++ H D+K P N+ H+K
Sbjct: 95 SEDEARFYLRQILSALEY-----LHSKGIVHRDLK------------PENILLDEDGHVK 137
Query: 135 THTDNSLYICEICGKDFGTARYLKRHKDTHNSVNT 169
+ DFG AR L + V T
Sbjct: 138 -----------LA--DFGLARQLDPGEKLTTFVGT 159
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
0.325 0.136 0.458
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,621,613
Number of extensions: 903039
Number of successful extensions: 1682
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1656
Number of HSP's successfully gapped: 134
Length of query: 220
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 127
Effective length of database: 6,812,680
Effective search space: 865210360
Effective search space used: 865210360
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.8 bits)