RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy691
(134 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 34.3 bits (79), Expect = 0.001
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 75 LNRHMKCHSDVKRYLCTFCGKGFN 98
L RHM+ H+ K Y C CGK F+
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFS 25
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 35.1 bits (80), Expect = 0.007
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 2/70 (2%)
Query: 55 KDNTRFACHLCSKSFSLQRLLNRHMKCHSDVKRYLCTF--CGKGFNDTFDLKRHTRTHTG 112
+C C+ SFS L RH++ H+ K C++ C K F+ +L RH RTH
Sbjct: 29 NAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHN 88
Query: 113 KEEEEEEDGK 122
+
Sbjct: 89 NPSDLNSKSL 98
Score = 30.0 bits (67), Expect = 0.39
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 6/63 (9%)
Query: 58 TRFACHLCSKSFSLQRLLNRHMKCHSDV----KRYLCTF--CGKGFNDTFDLKRHTRTHT 111
C+ SFS L RH++ + K + C + CGK F+ LKRH HT
Sbjct: 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347
Query: 112 GKE 114
Sbjct: 348 SIS 350
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 32.1 bits (73), Expect = 0.007
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 60 FACHLCSKSFSLQRLLNRHMKCH 82
+ C C K F + L HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 30.1 bits (68), Expect = 0.035
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 88 YLCTFCGKGFNDTFDLKRHTRTH 110
Y C CGK F L+ H RTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>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 = 31.2 bits (71), Expect = 0.013
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 90 CTFCGKGFNDTFDLKRHTRTH 110
C CGK F+ +LKRH RTH
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.16
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 62 CHLCSKSFSLQRLLNRHMK 80
C C KSFS + L RH++
Sbjct: 2 CPDCGKSFSRKSNLKRHLR 20
>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 = 29.9 bits (67), Expect = 0.039
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 60 FACHLCSKSFSLQRLLNRHMKCH 82
F C LC KSFS + L RH++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 29.1 bits (65), Expect = 0.091
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 88 YLCTFCGKGFNDTFDLKRHTRTH 110
+ C CGK F+ LKRH R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|116972 pfam08392, FAE1_CUT1_RppA, FAE1/Type III polyketide synthase-like
protein. The members of this family are described as
3-ketoacyl-CoA synthases, type III polyketide synthases,
fatty acid elongases and fatty acid condensing enzymes,
and are found in both prokaryotic and eukaryotic (mainly
plant) species. The region featured in this family
contains the active site residues, as well as motifs
involved in substrate binding.
Length = 290
Score = 29.4 bits (67), Expect = 0.46
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 8/42 (19%)
Query: 101 FDLKRHTRTHTGKEE--------EEEEDGKTNVLTTEYLVVV 134
++L RTH G ++ EE+EDGK V ++ L+ V
Sbjct: 215 YELVHTVRTHKGADDRAYRCVYQEEDEDGKVGVSLSKDLMAV 256
>gnl|CDD|235309 PRK04596, minC, septum formation inhibitor; Reviewed.
Length = 248
Score = 29.2 bits (65), Expect = 0.57
Identities = 11/16 (68%), Positives = 11/16 (68%)
Query: 30 VSAIIPPPPPPTRVEP 45
VS PPPPPP R EP
Sbjct: 117 VSPPPPPPPPPARAEP 132
>gnl|CDD|222946 PHA02935, PHA02935, Hypothetical protein; Provisional.
Length = 349
Score = 28.9 bits (64), Expect = 0.86
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 29 DVSAIIPPPPPPTRVEPEKVESTTGR------KDNTRFACHLCSKSFSLQRLLNRHMKCH 82
++ I P PT ++ ST R ++ F+C+L S+++S ++LN C
Sbjct: 201 ELKRYISGNPYPTESLALEISSTFNRFTIVKNLNDDEFSCYLFSQNYSFHKMLNARHICE 260
Query: 83 SD 84
S+
Sbjct: 261 SE 262
>gnl|CDD|218591 pfam05443, ROS_MUCR, ROS/MUCR transcriptional regulator protein.
This family consists of several ROS/MUCR transcriptional
regulator proteins. The ros chromosomal gene is present
in octopine and nopaline strains of Agrobacterium
tumefaciens as well as in Rhizobium meliloti. This gene
encodes a 15.5-kDa protein that specifically represses
the virC and virD operons in the virulence region of the
Ti plasmid and is necessary for succinoglycan
production. Sinorhizobium meliloti can produce two types
of acidic exopolysaccharides, succinoglycan and
galactoglucan, that are interchangeable for infection of
alfalfa nodules. MucR from Sinorhizobium meliloti acts
as a transcriptional repressor that blocks the
expression of the exp genes responsible for
galactoglucan production therefore allowing the
exclusive production of succinoglycan.
Length = 130
Score = 27.5 bits (62), Expect = 1.6
Identities = 14/28 (50%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 90 CTFCGKGFNDTFDLKRHTRTHTGKEEEE 117
C GK F LKRH RTH G EE
Sbjct: 73 CLEDGKKFKT---LKRHLRTHHGLTPEE 97
>gnl|CDD|152747 pfam12312, NeA_P2, Nepovirus subgroup A polyprotein. This family
of proteins is found in viruses. Proteins in this family
are typically between 259 and 1110 amino acids in
length. The family is found in association with
pfam03688, pfam03689, pfam03391. This family is one of
the polyproteins expressed by Nepoviruses in subgroup A.
Length = 175
Score = 27.6 bits (61), Expect = 1.7
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 14/62 (22%)
Query: 30 VSAIIPPPPPPTRVEP----EKVESTTGRKDNTRFACHLCSKSFSLQRL--LNRHMKCHS 83
+ PPPPPP +P E++ R+ C+++F+L+ LN
Sbjct: 115 GPCLPPPPPPPPIQKPPSFRERLREACRRQ--------SCARAFALETSLGLNMAWVGRV 166
Query: 84 DV 85
D+
Sbjct: 167 DI 168
>gnl|CDD|216662 pfam01722, BolA, BolA-like protein. This family consist of the
morphoprotein BolA from E. coli and its various
homologues. In E. coli over expression of this protein
causes round morphology and may be involved in
switching the cell between elongation and septation
systems during cell division. The expression of BolA is
growth rate regulated and is induced during the
transition into the the stationary phase. BolA is also
induced by stress during early stages of growth and may
have a general role in stress response. It has also
been suggested that BolA can induce the transcription
of penicillin binding proteins 6 and 5.
Length = 72
Score = 26.4 bits (59), Expect = 2.0
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 39 PPTRVEPEKVESTTGRKDNTRFACHLCSKSFSLQRLLNRH 78
PP +E VE + + D + F + S +F + L+ RH
Sbjct: 8 PPAHLE---VEDESHKGDGSHFKVVVVSDAFEGKSLVKRH 44
>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 = 24.8 bits (55), Expect = 2.7
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 59 RFACHLCSKSFSLQRLLNRHMK 80
+F C C K F + L H+K
Sbjct: 1 QFYCVACDKYFKSENALENHLK 22
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 24.9 bits (55), Expect = 3.0
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 60 FACHLCSKSFSLQRLLNRHMKCH 82
C +C K+FS + L H K H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|218590 pfam05438, TRH, Thyrotropin-releasing hormone (TRH). This family
consists of several thyrotropin-releasing hormone (TRH)
proteins. Thyrotropin-Releasing Hormone (TRH;
pyroGlu-His-Pro-NH2), originally isolated as a
hypothalamic neuropeptide hormone, most likely acts also
as a neuromodulator and/or neurotransmitter in the
central nervous system (CNS). This interpretation is
supported by the identification of a peptidase localised
on the surface of neuronal cells which has been termed
TRH-degrading ectoenzyme (TRH-DE) since it selectively
inactivates TRH. TRH has been used clinically for the
treatment of spinocerebellar degeneration and
disturbance of consciousness in humans.
Length = 210
Score = 26.4 bits (58), Expect = 4.2
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 106 HTRTHTGKEEEEEEDG 121
H R H G+ E EEED
Sbjct: 161 HKRQHPGRRELEEEDD 176
>gnl|CDD|182405 PRK10357, PRK10357, putative glutathione S-transferase;
Provisional.
Length = 202
Score = 26.2 bits (58), Expect = 4.6
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 7/31 (22%)
Query: 3 ILGLPKGVTLEFVN-----GGHGVK--NPLA 26
IL L KG+T EFVN +GV NPL
Sbjct: 17 ILLLEKGITFEFVNELPYNADNGVAQYNPLG 47
>gnl|CDD|182726 PRK10782, PRK10782, DL-methionine transporter permease subunit;
Provisional.
Length = 217
Score = 26.2 bits (58), Expect = 5.7
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 3 ILGLPKGVTLEFVNGGHGVKNPLANHDVSAII 34
++GLP GV L G + N +SA++
Sbjct: 29 VIGLPVGVLLYVTRPGQIIANAKLYRTLSALV 60
>gnl|CDD|239495 cd03401, Band_7_prohibitin, Band_7_prohibitin. A subgroup of the
band 7 domain of flotillin (reggie) like proteins. This
subgroup group includes proteins similar to prohibitin
(a lipid raft-associated integral membrane protein).
Individual proteins of this band 7 domain family may
cluster to form membrane microdomains which may in turn
recruit multiprotein complexes. These microdomains in
addition to being stable scaffolds may also be also
dynamic units with their own regulatory functions.
Prohibitin is a mitochondrial inner-membrane protein
which may act as a chaperone for the stabilization of
mitochondrial proteins. Human prohibitin forms a
heter-oligomeric complex with Bap-37 (prohibitin 2, a
band 7 domain carrying homologue). This complex may
protect non-assembled membrane proteins against
proteolysis by the m-AAA protease. Prohibitin and
Bap-37 yeast homologues have been implicated in yeast
longevity and, in the maintenance of mitochondrial
morphology.
Length = 196
Score = 26.0 bits (58), Expect = 5.9
Identities = 19/56 (33%), Positives = 24/56 (42%), Gaps = 13/56 (23%)
Query: 15 VNGGH---------GVKNPLANHDVSAIIP----PPPPPTRVEPEKVESTTGRKDN 57
V+GGH GVK+ + + IP P R P +ESTTG KD
Sbjct: 5 VDGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNIESTTGSKDL 60
>gnl|CDD|239255 cd02957, Phd_like, Phosducin (Phd)-like family; composed of Phd
and Phd-like proteins (PhLP), characterized as
cytosolic regulators of G protein functions. Phd and
PhLPs specifically bind G protein betagamma
(Gbg)-subunits with high affinity, resulting in the
solubilization of Gbg from the plasma membrane and
impeding G protein-mediated signal transduction by
inhibiting the formation of a functional G protein
trimer (G protein alphabetagamma). Phd also inhibits
the GTPase activity of G protein alpha. Phd can be
phosphorylated by protein kinase A and G
protein-coupled receptor kinase 2, leading to its
inactivation. Phd was originally isolated from the
retina, where it is highly expressed and has been
implicated to play an important role in light
adaptation. It is also found in the pineal gland,
liver, spleen, striated muscle and the brain. The
C-terminal domain of Phd adopts a thioredoxin fold, but
it does not contain a CXXC motif. Phd interacts with G
protein beta mostly through the N-terminal helical
domain. Also included in this family is a PhLP
characterized as a viral inhibitor of apoptosis
(IAP)-associated factor, named VIAF, that functions in
caspase activation during apoptosis.
Length = 113
Score = 25.6 bits (57), Expect = 6.5
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 44 EPEKVESTTGRKDNTRFACHLCSKSFSLQRLLNRHMKC----HSDVK 86
E +E T TR H F ++L+ H++ + + K
Sbjct: 11 SKEFLEEVTKASKGTRVVVHFYEPGFPRCKILDSHLEELAAKYPETK 57
>gnl|CDD|221755 pfam12756, zf-C2H2_2, C2H2 type zinc-finger (2 copies). This
family contains two copies of a C2H2-like zinc finger
domain.
Length = 100
Score = 25.3 bits (56), Expect = 6.9
Identities = 20/87 (22%), Positives = 27/87 (31%), Gaps = 29/87 (33%)
Query: 62 CHLCSKSFSLQRLLNRHM-KCHS---DVKRYL-------------------CTFCGKGFN 98
C C+ + HM K H + YL C +CGK F
Sbjct: 2 CLFCNHTSDTVEENLEHMFKSHGFFIPEREYLVDLEGLLNYLREKIHEGNECLYCGKQFK 61
Query: 99 DTFDL------KRHTRTHTGKEEEEEE 119
L K H + EEE++E
Sbjct: 62 SLEALRQHMRDKGHCKIPYETEEEKDE 88
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 26.2 bits (57), Expect = 6.9
Identities = 19/78 (24%), Positives = 27/78 (34%), Gaps = 22/78 (28%)
Query: 55 KDNTRFACHL--CSKSFSLQRLLNRHMK-------------------CHSDVKRYLCTFC 93
KD + C + C+K + Q L HM + K Y C C
Sbjct: 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVC 404
Query: 94 GKGFNDTFDLKRHTRTHT 111
K + + LK H R H+
Sbjct: 405 DKRYKNLNGLKYH-RKHS 421
>gnl|CDD|132943 cd06612, STKc_MST1_2, Catalytic domain of the Protein
Serine/Threonine Kinases, Mammalian Ste20-like protein
kinase 1 and 2. Serine/threonine kinases (STKs),
mammalian Ste20-like protein kinase 1 (MST1) and MST2
subfamily, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MST1/2 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. This subfamily is composed of MST1, MST2, and
related proteins including Drosophila Hippo and
Dictyostelium discoideum Krs1 (kinase responsive to
stress 1). MST1/2 and Hippo are involved in a conserved
pathway that governs cell contact inhibition, organ size
control, and tumor development. MST1 activates the
mitogen-activated protein kinases (MAPKs) p38 and c-Jun
N-terminal kinase (JNK) through MKK7 (a MAPK kinase) and
MEKK1 (a MAPK kinase kinase) by acting as a MAPK kinase
kinase kinase (MAPKKKK). Activation of JNK by MST1 leads
to caspase activation and apoptosis. MST1 has also been
implicated in cell proliferation and differentiation.
Krs1 may regulate cell growth arrest and apoptosis in
response to cellular stress.
Length = 256
Score = 25.7 bits (57), Expect = 7.7
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 22 KNPLAN-HDVSAI--IPPPPPPTRVEPEK 47
K P ++ H + AI IP PPPT +PEK
Sbjct: 196 KPPYSDIHPMRAIFMIPNKPPPTLSDPEK 224
>gnl|CDD|215631 PLN03202, PLN03202, protein argonaute; Provisional.
Length = 900
Score = 26.2 bits (58), Expect = 7.8
Identities = 10/26 (38%), Positives = 11/26 (42%)
Query: 35 PPPPPPTRVEPEKVESTTGRKDNTRF 60
PPP P V P K+E T R
Sbjct: 7 PPPVVPPNVVPIKLEPTKKPSKPKRL 32
>gnl|CDD|147993 pfam06126, Herpes_LAMP2, Herpesvirus Latent membrane protein 2.
Family of Kaposi's sarcoma-associated herpesvirus (HHV8)
latent membrane protein.
Length = 510
Score = 26.1 bits (57), Expect = 7.8
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 20 GVKNPLANHDVSAIIPPPP-PPTRVEPEKVESTT 52
G P NH + +I PPP PP ++ S T
Sbjct: 385 GRICPDVNHLANNLISPPPLPPFFRIHSRILSHT 418
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 25.9 bits (57), Expect = 7.9
Identities = 8/15 (53%), Positives = 8/15 (53%)
Query: 35 PPPPPPTRVEPEKVE 49
PPPP P E E E
Sbjct: 277 PPPPEPPEPEEEPDE 291
>gnl|CDD|222714 pfam14369, zf-RING_3, zinc-finger.
Length = 34
Score = 23.7 bits (52), Expect = 8.4
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 10/40 (25%)
Query: 58 TRFACHLCSKSFSLQRLLNRHMKCHSDVKRYLCTFCGKGF 97
+R+ C+ C + + SDV C CG GF
Sbjct: 1 SRYWCYQCDRFVRIAPSG------DSDV----CPRCGGGF 30
>gnl|CDD|227505 COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and
modification].
Length = 2365
Score = 26.1 bits (57), Expect = 9.1
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 35 PPPPPPTRVEP 45
PPPPPP EP
Sbjct: 10 PPPPPPPGFEP 20
>gnl|CDD|240332 PTZ00255, PTZ00255, 60S ribosomal protein L37a; Provisional.
Length = 90
Score = 24.7 bits (54), Expect = 9.2
Identities = 6/9 (66%), Positives = 7/9 (77%)
Query: 87 RYLCTFCGK 95
+Y C FCGK
Sbjct: 36 KYFCPFCGK 44
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 0.136 0.419
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,886,075
Number of extensions: 583835
Number of successful extensions: 843
Number of sequences better than 10.0: 1
Number of HSP's gapped: 831
Number of HSP's successfully gapped: 57
Length of query: 134
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 48
Effective length of database: 7,123,158
Effective search space: 341911584
Effective search space used: 341911584
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: 54 (24.6 bits)