RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy968
(272 letters)
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac. Domain
in Broad-Complex, Tramtrack and Bric a brac. Also known
as POZ (poxvirus and zinc finger) domain. Known to be a
protein-protein interaction motif found at the N-termini
of several C2H2-type transcription factors as well as
Shaw-type potassium channels. Known structure reveals a
tightly intertwined dimer formed via interactions
between N-terminal strand and helix structures. However
in a subset of BTB/POZ domains, these two secondary
structures appear to be missing. Be aware SMART predicts
BTB/POZ domains without the beta1- and alpha1-secondary
structures.
Length = 97
Score = 40.4 bits (95), Expect = 7e-05
Identities = 27/102 (26%), Positives = 44/102 (43%), Gaps = 8/102 (7%)
Query: 168 VTLVVDNTRFVLDPALFTAYPNTMLGRMFSSGREFTHTNDRGEYEVAEGIPAAVFRAILD 227
VTLVV +F A+ A+ S +E + E + + + FRA+L+
Sbjct: 2 VTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKS----EIYL-DDVSPEDFRALLN 56
Query: 228 Y-YKGQVIKCPPSVSVQELREACDYLLVPFDAHTVRCQNLRR 268
+ Y G++ P +V+EL E DYL +P L+
Sbjct: 57 FLYTGKLD--LPEENVEELLELADYLQIPGLVELCEEFLLKL 96
Score = 29.2 bits (66), Expect = 0.61
Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 3/40 (7%)
Query: 24 SFKVFRAILDY-YKGQVIKCPPSVSVQELREACDYLLVPF 62
S + FRA+L++ Y G++ P +V+EL E DYL +P
Sbjct: 47 SPEDFRALLNFLYTGKLD--LPEENVEELLELADYLQIPG 84
>gnl|CDD|202161 pfam02214, K_tetra, K+ channel tetramerisation domain. The
N-terminal, cytoplasmic tetramerisation domain (T1) of
voltage-gated K+ channels encodes molecular determinants
for subfamily-specific assembly of alpha-subunits into
functional tetrameric channels. It is distantly related
to the BTB/POZ domain pfam00651.
Length = 92
Score = 34.1 bits (79), Expect = 0.012
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 168 VTLVVDNTRFVLDPALFTAYPNTMLGRMFSSGREFTHTNDRGEYEVAEGIPAAVFRAILD 227
V L V RF + T +P+T+LGR+ + +D EY F IL+
Sbjct: 1 VRLNVGGKRFETSKSTLTRFPDTLLGRLLKRCDFY--DDDTNEYFFDRSPKH--FETILN 56
Query: 228 YYK-GQVIKCPPSVSVQELREACDY 251
+Y+ G + P V + E ++
Sbjct: 57 FYRTGGKLHRPEEVCLDSFLEELEF 81
Score = 26.0 bits (58), Expect = 9.1
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 26 KVFRAILDYYK-GQVIKCPPSVSVQELREACDY 57
K F IL++Y+ G + P V + E ++
Sbjct: 49 KHFETILNFYRTGGKLHRPEEVCLDSFLEELEF 81
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab) or
POZ (for Pox virus and Zinc finger) domain is present
near the N-terminus of a fraction of zinc finger
(pfam00096) proteins and in proteins that contain the
pfam01344 motif such as Kelch and a family of pox virus
proteins. The BTB/POZ domain mediates homomeric
dimerisation and in some instances heteromeric
dimerisation. The structure of the dimerised PLZF
BTB/POZ domain has been solved and consists of a tightly
intertwined homodimer. The central scaffolding of the
protein is made up of a cluster of alpha-helices flanked
by short beta-sheets at both the top and bottom of the
molecule. POZ domains from several zinc finger proteins
have been shown to mediate transcriptional repression
and to interact with components of histone deacetylase
co-repressor complexes including N-CoR and SMRT. The POZ
or BTB domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 32.6 bits (75), Expect = 0.054
Identities = 23/95 (24%), Positives = 38/95 (40%), Gaps = 22/95 (23%)
Query: 168 VTLVVDNTRF-----VLDPALFTAYPNTMLGRMFSSGREFTHTNDRGEYEVAEGIPAAVF 222
VTLVV + F VL A + Y + F+ +E T + + F
Sbjct: 13 VTLVVGDKEFHAHKAVL--AACSPYFKAL----FTGNKEVEITLE--------DVSPEDF 58
Query: 223 RAILDY-YKGQVIKCPPSVSVQELREACDYLLVPF 256
A+L++ Y G++ +V +L D L +P
Sbjct: 59 EALLEFIYTGKLE--ITEENVDDLLALADKLQIPA 91
>gnl|CDD|217017 pfam02399, Herpes_ori_bp, Origin of replication binding protein.
This Pfam family represents the herpesvirus origin of
replication binding protein, probably involved in DNA
replication.
Length = 829
Score = 30.4 bits (69), Expect = 1.1
Identities = 21/90 (23%), Positives = 31/90 (34%), Gaps = 13/90 (14%)
Query: 24 SFKVFRAILDYYKGQVIKCPPSVSVQ-ELREA---CDYLLVPFDAHTVRCQNLRGLLHEL 79
S +VFR I D+Y + P + + L D+ + C+ + L
Sbjct: 585 SEEVFRRIYDHYASGWV---PVLGIAGALETVALTPDFNVSGRWDLFRLCERIAADLGLN 641
Query: 80 SNEGARCQFEVFLEDLILPLMVNSAQRGDR 109
G ED IL L A+R R
Sbjct: 642 PCTGGTTDIS---EDDILRLA---ARRYSR 665
>gnl|CDD|227710 COG5423, COG5423, Predicted metal-binding protein [Function
unknown].
Length = 167
Score = 27.9 bits (62), Expect = 4.0
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 231 GQVIKCPPSV-SVQE----LREACDYLLVPFDAHTVRCQNLRRKVF 271
G+ + CPP V S++E L+E LLV F T + +++
Sbjct: 46 GKRLSCPPHVPSIEEFREILKEYRRALLVKFKIDTSEDEEEKKRSL 91
>gnl|CDD|184353 PRK13832, PRK13832, plasmid partitioning protein; Provisional.
Length = 520
Score = 28.5 bits (64), Expect = 4.2
Identities = 27/86 (31%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 101 VNSAQRGDRECHVVVLLDDDTVDWDEAYPPQMGEEYSQSSLSRPTNKNSTNDHTSSGANT 160
V S +R VV + D + D A+ P MG E S LSRP + + D
Sbjct: 429 VLSCRRNMSNSGVVARIAGDAIGAD-AFLPNMGTEDFLSCLSRPALEAACKDTGVLPRQK 487
Query: 161 IPTSEERVTLV--VDNTRFVLDPALF 184
+ E R LV + FV ALF
Sbjct: 488 V--KETRAALVEHFKDGHFVHPAALF 511
>gnl|CDD|133431 cd05295, MDH_like, Malate dehydrogenase-like. These MDH-like
proteins are related to other groups in the MDH family
but do not have conserved substrate and cofactor binding
residues. MDH is one of the key enzymes in the citric
acid cycle, facilitating both the conversion of malate
to oxaloacetate and replenishing levels of oxalacetate
by reductive carboxylation of pyruvate. Members of this
subgroup are uncharacterized MDH-like proteins from
animals. They are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 452
Score = 28.1 bits (63), Expect = 6.3
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 92 LEDLILPLMVNSAQRGD-----RECHVVVLLDDDTVDWDE 126
+EDL PL+ + D ++ HV+VLLDD + E
Sbjct: 176 VEDLAFPLLRGISVTTDLDVAFKDAHVIVLLDDFLIKEGE 215
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase (decarboxylating).
This model does not specify whether the cofactor is
NADP only (EC 1.1.1.44), NAD only, or both. The model
does not assign an EC number for that reason [Energy
metabolism, Pentose phosphate pathway].
Length = 467
Score = 27.7 bits (62), Expect = 6.6
Identities = 20/57 (35%), Positives = 24/57 (42%), Gaps = 7/57 (12%)
Query: 216 GIPAAVFRAILDYYKGQVIKCPPSVSVQELREACDYLLVPFDAHTVRCQNLRRKVFF 272
GIP F A L +Y G P+ +Q R DY F AHT + R FF
Sbjct: 412 GIPVPAFSAALSFYDGYRTARLPANLLQAQR---DY----FGAHTYERTDKPRGEFF 461
>gnl|CDD|214625 smart00332, PP2Cc, Serine/threonine phosphatases, family 2C,
catalytic domain. The protein architecture and deduced
catalytic mechanism of PP2C phosphatases are similar to
the PP1, PP2A, PP2B family of protein Ser/Thr
phosphatases, with which PP2C shares no sequence
similarity.
Length = 252
Score = 27.3 bits (61), Expect = 7.5
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 220 AVFRAILDYYKGQVIKCPPSVSVQELREACDYLLV 254
A+ RAI D++ + P V+V EL E D+L++
Sbjct: 167 ALSRAIGDFFLKPYVSAEPDVTVVELTEKDDFLIL 201
>gnl|CDD|238083 cd00143, PP2Cc, Serine/threonine phosphatases, family 2C, catalytic
domain; The protein architecture and deduced catalytic
mechanism of PP2C phosphatases are similar to the PP1,
PP2A, PP2B family of protein Ser/Thr phosphatases, with
which PP2C shares no sequence similarity.
Length = 254
Score = 27.3 bits (61), Expect = 8.7
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 220 AVFRAILDYYKGQVIKCPPSVSVQELREACDYLLV 254
AV RA+ D+ + P V+V +L E D+L++
Sbjct: 166 AVTRALGDFDLKPGVSAEPDVTVVKLTEDDDFLIL 200
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 0.137 0.421
Gapped
Lambda K H
0.267 0.0697 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,761,917
Number of extensions: 1283397
Number of successful extensions: 1075
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1073
Number of HSP's successfully gapped: 18
Length of query: 272
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 177
Effective length of database: 6,723,972
Effective search space: 1190143044
Effective search space used: 1190143044
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: 41 (22.0 bits)
S2: 58 (26.2 bits)