RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12567
(142 letters)
>gnl|CDD|238123 cd00202, ZnF_GATA, Zinc finger DNA binding domain; binds
specifically to DNA consensus sequence [AT]GATA[AG]
promoter elements; a subset of family members may also
bind protein; zinc-finger consensus topology is
C-X(2)-C-X(17)-C-X(2)-C.
Length = 54
Score = 66.6 bits (163), Expect = 7e-16
Identities = 25/46 (54%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 80 ECVNCGAISTPLWRRDG-TGHYLCNACGLYHKMNGMNRPLVKQPRR 124
C NCG +TPLWRR G LCNACGLY K +G+ RPL K+ +
Sbjct: 1 ACSNCGTTTTPLWRRGPSGGSTLCNACGLYWKKHGVMRPLSKRKKD 46
Score = 42.7 bits (101), Expect = 1e-06
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 22 ECVNCGAISTPLWRRDG-TGHYLCNA 46
C NCG +TPLWRR G LCNA
Sbjct: 1 ACSNCGTTTTPLWRRGPSGGSTLCNA 26
>gnl|CDD|214648 smart00401, ZnF_GATA, zinc finger binding to DNA consensus sequence
[AT]GATA[AG].
Length = 52
Score = 58.2 bits (141), Expect = 1e-12
Identities = 26/44 (59%), Positives = 31/44 (70%), Gaps = 2/44 (4%)
Query: 77 EGRECVNCGAISTPLWRRDGTGH-YLCNACGLYHKMNG-MNRPL 118
GR C NCG TPLWRR +G+ LCNACGLY+K +G + RPL
Sbjct: 2 SGRSCSNCGTTETPLWRRGPSGNKTLCNACGLYYKKHGGLKRPL 45
Score = 41.6 bits (98), Expect = 3e-06
Identities = 17/29 (58%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 19 EGRECVNCGAISTPLWRRDGTGH-YLCNA 46
GR C NCG TPLWRR +G+ LCNA
Sbjct: 2 SGRSCSNCGTTETPLWRRGPSGNKTLCNA 30
>gnl|CDD|109380 pfam00320, GATA, GATA zinc finger. This domain uses four cysteine
residues to coordinate a zinc ion. This domain binds to
DNA. Two GATA zinc fingers are found in the GATA
transcription factors. However there are several
proteins which only contains a single copy of the
domain.
Length = 36
Score = 57.7 bits (140), Expect = 1e-12
Identities = 20/36 (55%), Positives = 25/36 (69%), Gaps = 1/36 (2%)
Query: 81 CVNCGAISTPLWRRDGTGHY-LCNACGLYHKMNGMN 115
C NCG TPLWRR G+ LCNACGLY++ +G+
Sbjct: 1 CSNCGTTKTPLWRRGPDGNRTLCNACGLYYRKHGLK 36
Score = 42.6 bits (101), Expect = 9e-07
Identities = 15/25 (60%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 23 CVNCGAISTPLWRRDGTGHY-LCNA 46
C NCG TPLWRR G+ LCNA
Sbjct: 1 CSNCGTTKTPLWRRGPDGNRTLCNA 25
>gnl|CDD|227928 COG5641, GAT1, GATA Zn-finger-containing transcription factor
[Transcription].
Length = 498
Score = 49.5 bits (118), Expect = 9e-08
Identities = 22/45 (48%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 81 CVNCGAISTPLWRRD-----GTGHYLCNACGLYHKMNGMNRPLVK 120
C NC STPLWRR G+ LCNACGLY K++G R +
Sbjct: 161 CSNCKTTSTPLWRRASSESSLPGNNLCNACGLYLKLHGSPRAPIS 205
Score = 33.3 bits (76), Expect = 0.027
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 83 NCGAISTPLWRR-DGTGHYLCNACGLYHKMNGMNRPLVKQP 122
+ +TPLWRR + CNA G K G RPL+ +P
Sbjct: 303 LTTSTATPLWRRTSDKSSFSCNASGSALKPPGSKRPLLPKP 343
Score = 32.9 bits (75), Expect = 0.046
Identities = 15/29 (51%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 23 CVNCGAISTPLWRRD-----GTGHYLCNA 46
C NC STPLWRR G+ LCNA
Sbjct: 161 CSNCKTTSTPLWRRASSESSLPGNNLCNA 189
Score = 26.4 bits (58), Expect = 6.2
Identities = 7/30 (23%), Positives = 10/30 (33%), Gaps = 1/30 (3%)
Query: 89 TPLWRRDGTGHYLCNACGL-YHKMNGMNRP 117
L+R C+ + HK N N
Sbjct: 6 DSLFRSPPDLFLSCDINSIDLHKHNLPNAA 35
>gnl|CDD|184886 PRK14892, PRK14892, putative transcription elongation factor Elf1;
Provisional.
Length = 99
Score = 32.7 bits (75), Expect = 0.018
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 80 ECVNCGAISTPLWRRDGTGHYLCNACGLYHKMN 112
EC CG +S + + C CGLY +
Sbjct: 23 ECPRCGKVSISVKIKKNIAIITCGNCGLYTEFE 55
>gnl|CDD|219113 pfam06629, MipA, MltA-interacting protein MipA. This family
consists of several bacterial MltA-interacting protein
(MipA) like sequences. As well as interacting with the
membrane-bound lytic transglycosylase MltA, MipA is
known to bind to PBP1B, a bifunctional murein
transglycosylase/transpeptidase. MipA is considered to
be a structural protein mediating the assembly of MltA
to PBP1B into a complex.
Length = 226
Score = 29.2 bits (66), Expect = 0.61
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 35 RRDGTGHYLCNARLFSTSFTGYFIMSRF 62
R G G+YL + F S T RF
Sbjct: 38 RGTGGGYYLVDQSGFRLSLTASLDPGRF 65
>gnl|CDD|201972 pfam01783, Ribosomal_L32p, Ribosomal L32p protein family.
Length = 56
Score = 26.8 bits (60), Expect = 0.88
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 8/29 (27%)
Query: 80 ECVNCGAISTPLWRRDGTGHYLCNACGLY 108
EC NCG + P H +C +CG Y
Sbjct: 28 ECPNCGELKLP--------HRVCPSCGYY 48
>gnl|CDD|226060 COG3529, COG3529, Predicted nucleic-acid-binding protein containing
a Zn-ribbon domain [General function prediction only].
Length = 66
Score = 27.1 bits (60), Expect = 1.1
Identities = 11/33 (33%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 75 FTEGRECVNCGAIST-PLWRRDGTGHYLCNACG 106
F G C C A T +WR + C CG
Sbjct: 7 FIAGAVCPACQAQDTLAMWRENNVEIVECVKCG 39
>gnl|CDD|235832 PRK06567, PRK06567, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase; Validated.
Length = 1028
Score = 27.9 bits (62), Expect = 2.2
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 3/27 (11%)
Query: 97 TGHYLCNACG---LYHKMNGMNRPLVK 120
TGH +CN C +Y K + +N PL++
Sbjct: 319 TGHRICNDCSKACIYQKQDPVNIPLIE 345
>gnl|CDD|200533 cd11272, Sema_plexin_A2, The Sema domain, a protein interacting
module, of Plexin A2. Plexin A2 serves as a receptor
for class 6 semaphorins. Interactions between Plexin A2,
A4 and semaphorins 6A and 6B control the
lamina-restricted projection of hippocampal mossy
fibers. Sema6B also repels the growth of mossy fibers in
a Plexin A4 dependent manner. Plexin A2 does not
suppress Sema6B function. In addition, studies have
shown that Plexin A2 may be related to anxiety and other
psychiatric disorders. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 515
Score = 27.6 bits (61), Expect = 2.9
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 49 FSTSFTGYFIMSRFLFASLPVEDIEYFTEGRECVNCG 85
FS ++MS + +PVE E +T EC++ G
Sbjct: 451 FSIDHKYLYVMSERQVSRVPVESCEQYTTCGECLSSG 487
>gnl|CDD|183451 PRK12336, PRK12336, translation initiation factor IF-2 subunit
beta; Provisional.
Length = 201
Score = 26.8 bits (60), Expect = 3.2
Identities = 15/49 (30%), Positives = 18/49 (36%), Gaps = 5/49 (10%)
Query: 66 SLPVEDI-----EYFTEGRECVNCGAISTPLWRRDGTGHYLCNACGLYH 109
EDI Y E C CG T L + D C+ACG +
Sbjct: 81 KFTEEDIQAAIDAYVDEYVICSECGLPDTRLVKEDRVLMLRCDACGAHR 129
>gnl|CDD|236014 PRK07418, PRK07418, acetolactate synthase 3 catalytic subunit;
Reviewed.
Length = 616
Score = 26.6 bits (59), Expect = 6.0
Identities = 10/31 (32%), Positives = 11/31 (35%), Gaps = 7/31 (22%)
Query: 76 TEGRECVNCGAISTPLWRRDGTGHYLCNACG 106
E C NCGA + H C CG
Sbjct: 590 AELIYCSNCGAKNPST-------HRFCPECG 613
>gnl|CDD|238279 cd00501, Peptidase_C15, Pyroglutamyl peptidase (PGP) type I, also
known as pyrrolidone carboxyl peptidase (pcp) type I:
Enzymes responsible for cleaving pyroglutamate (pGlu)
from the N-terminal end of specialized proteins. The
N-terminal pGlu protects these proteins from proteolysis
by other proteases until the pGlu is removed by a PGP.
PGPs are cysteine proteases with a Cys-His-Glu/Asp
catalytic triad. Type I PGPs are found in a wide variety
of prokaryotes and eukaryotes. It is not clear whether
the functional form is a monomer, a homodimer, or a
homotetramer.
Length = 194
Score = 26.1 bits (58), Expect = 6.2
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 3 RFLFASLPVEDIEYFTEGRECVNCGAISTPLWRRDGTGHYLCN 45
F++LPV+ I RE +S + G YLCN
Sbjct: 109 AAYFSTLPVKAI--VKALREAGIPARVS------NDAGTYLCN 143
Score = 26.1 bits (58), Expect = 6.2
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 61 RFLFASLPVEDIEYFTEGRECVNCGAISTPLWRRDGTGHYLCN 103
F++LPV+ I RE +S + G YLCN
Sbjct: 109 AAYFSTLPVKAI--VKALREAGIPARVS------NDAGTYLCN 143
>gnl|CDD|129016 smart00778, Prim_Zn_Ribbon, Zinc-binding domain of
primase-helicase. This region represents the zinc
binding domain. It is found in the N-terminal region of
the bacteriophage P4 alpha protein, which is a
multifunctional protein with origin recognition,
helicase and primase activities.
Length = 37
Score = 24.2 bits (53), Expect = 6.7
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 80 ECVNCGAISTPLWR-RDGTGHYLCNACG 106
C NCG + +DG G + C+ CG
Sbjct: 5 PCPNCGGSDRFRFDDKDGRGTWFCSVCG 32
>gnl|CDD|203895 pfam08271, TF_Zn_Ribbon, TFIIB zinc-binding. The transcription
factor TFIIB contains a zinc-binding motif near the
N-terminus. This domain is involved in the interaction
with RNA pol II and TFIIF and plays a crucial role in
selecting the transcription initiation site. The domain
adopts a zinc ribbon like structure.
Length = 40
Score = 23.8 bits (52), Expect = 9.0
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 81 CVNCGAISTPLWRRDGTGHYLCNACGL 107
C NCG ST + G Y+C CGL
Sbjct: 3 CPNCG--STEIVFDYERGEYVCTECGL 27
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
0.329 0.143 0.480
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,412,932
Number of extensions: 637159
Number of successful extensions: 745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 740
Number of HSP's successfully gapped: 32
Length of query: 142
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 55
Effective length of database: 7,078,804
Effective search space: 389334220
Effective search space used: 389334220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.6 bits)