RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4688
(388 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 33.1 bits (76), Expect = 0.009
Identities = 13/23 (56%), Positives = 18/23 (78%)
Query: 354 SLKQHMITHTGERKYCCHICGKK 376
+L++HM THTGE+ Y C +CGK
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKS 23
Score = 28.1 bits (63), Expect = 0.66
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 120 LSDHISSHTGLKNYKCHVCDKAYSC 144
L H+ +HTG K YKC VC K++S
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 36.5 bits (84), Expect = 0.018
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 13/117 (11%)
Query: 30 ADKWRALIKNKTKTCPI--CNKSYPGARNMRKHLRLVHDKNSTTTCTMCKKTFRNKAT-F 86
D+ L+ K CP C++ + ++KH + H + C KK F N+ F
Sbjct: 143 RDEMEDLLSFK---CPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLF 199
Query: 87 QKHMQRAH--VGLKIS-VSKHFECNYCHAKFSNKSLLSDHISSHTGLKNYKCHVCDK 140
+ R H GL+ H C +C F + D + H L++ CH+CD
Sbjct: 200 RSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYD----DDELRRHCRLRHEACHICDM 252
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 33.3 bits (76), Expect = 0.062
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 43 TCPICNKSYPGARNMRKHLRLVHDKNSTTTCTMCKKTFRNKATFQKHMQRAH 94
CP+C + + ++++H+R + C +C K FRN + H+ + H
Sbjct: 75 VCPLCLMPFSSSVSLKQHIRY---TEHSKVCPVCGKEFRNTDSTLDHVCKKH 123
Score = 27.1 bits (60), Expect = 9.7
Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 13/93 (13%)
Query: 151 HTLLHEQEKVIKSSKKEFIIDTGDCTLDEWNDFIKRRVT------VCPKCNRDYRNPRNM 204
H+L EQ+++I++ K I + LDE + K + VCP C + + ++
Sbjct: 32 HSLTPEQKRLIRAVVKTLIYNPQ--LLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSL 89
Query: 205 RKHLRRV-HTSVRKYGCDECGKMLKSRDSLNTH 236
++H+R H+ V C CGK ++ DS H
Sbjct: 90 KQHIRYTEHSKV----CPVCGKEFRNTDSTLDH 118
>gnl|CDD|150045 pfam09237, GAGA, GAGA factor. Members of this family bind to a
5'-GAGAG-3' DNA consensus binding site, and contain a
Cys2-His2 zinc finger core as well as an N-terminal
extension containing two highly basic regions. The zinc
finger core binds in the DNA major groove and
recognises the first three GAG bases of the consensus
in a manner similar to that seen in other classical
zinc finger-DNA complexes. The second basic region
forms a helix that interacts in the major groove
recognising the last G of the consensus, while the
first basic region wraps around the DNA in the minor
groove and recognises the A in the fourth position of
the consensus sequence.
Length = 54
Score = 31.5 bits (71), Expect = 0.079
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 5/36 (13%)
Query: 37 IKNKTK-----TCPICNKSYPGARNMRKHLRLVHDK 67
IK+K++ TCPIC +RN+R+HL L H K
Sbjct: 15 IKSKSQSEQPATCPICQAVIRQSRNLRRHLELRHFK 50
Score = 27.6 bits (61), Expect = 1.6
Identities = 11/44 (25%), Positives = 15/44 (34%)
Query: 169 IIDTGDCTLDEWNDFIKRRVTVCPKCNRDYRNPRNMRKHLRRVH 212
T + + CP C R RN+R+HL H
Sbjct: 5 RAKHPPGTEKIKSKSQSEQPATCPICQAVIRQSRNLRRHLELRH 48
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 33.5 bits (76), Expect = 0.16
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 13/87 (14%)
Query: 129 GLKNYKCHV--CDKAYSCRKALKTHTLLHEQEKVIKSSKKEFIIDTGDCTLDEWNDF-IK 185
K YKC V C+K Y + LK H L Q + + + ++ N F K
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSP----------EKMNIFSAK 395
Query: 186 RRVTVCPKCNRDYRNPRNMRKHLRRVH 212
+ C C++ Y+N ++ H + H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYHRKHSH 422
Score = 31.2 bits (70), Expect = 1.0
Identities = 19/89 (21%), Positives = 28/89 (31%), Gaps = 18/89 (20%)
Query: 200 NPRNMRKHLRRVHT-SVRKYGCD--ECGKMLKSRDSLNTHKK--------------IQHE 242
RN+ R + + Y C C K K+++ L H +
Sbjct: 331 GERNIDTPSRMLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMN 390
Query: 243 GKKVKVKYEYECDYCGAKYPNKYTLSDHI 271
K K Y C+ C +Y N L H
Sbjct: 391 IFSAKDK-PYRCEVCDKRYKNLNGLKYHR 418
Score = 29.7 bits (66), Expect = 3.0
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 15/76 (19%)
Query: 76 CKKTFRNKATFQKHMQRAHVGLKISVSKHFECNYCHAKFSNKSLLSDHISSHTGLKNYKC 135
C K ++N+ + HM H K+ + E FS K K Y+C
Sbjct: 357 CNKKYKNQNGLKYHMLHGHQNQKLHENPSPEK---MNIFSAKD------------KPYRC 401
Query: 136 HVCDKAYSCRKALKTH 151
VCDK Y LK H
Sbjct: 402 EVCDKRYKNLNGLKYH 417
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 32.7 bits (74), Expect = 0.29
Identities = 22/64 (34%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 105 FECNYCHAKFSNKSLLSDHISSHTGLKNYKCHV--CDKAYSCRKALKTHTLLHEQEKVIK 162
C C FS L+ HI SHTG K +C CDK++S L H H
Sbjct: 34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDL 93
Query: 163 SSKK 166
+SK
Sbjct: 94 NSKS 97
Score = 30.4 bits (68), Expect = 1.7
Identities = 42/250 (16%), Positives = 81/250 (32%), Gaps = 30/250 (12%)
Query: 44 CPICNKSYPGARNMRKHLRLVHDKNSTTTCTMCKKTFRNKATFQKHMQRAHVGLKISVSK 103
++ P + + L +S++ + + ++ + + S
Sbjct: 229 LTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGFSL 288
Query: 104 HFECNYCHAKFSNKSLLSDHI--SSHTG--LKNYKCHV--CDKAYSCRKALKTHTLLHEQ 157
+ C+ FS S L+ H+ +H+G LK + C C K +S ALK H LLH
Sbjct: 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLH-- 346
Query: 158 EKVIKSSKKEFIIDTGDCTLDEWNDFIKRRVTVCPKCNRDYRNPRNMRKHLRRVHTSVRK 217
+S + + P+ + Y++ +N +K ++ +R
Sbjct: 347 -----TSISPAKEKLLNSSSKFSPLLNNEP----PQSLQQYKDLKNDKKSETLSNSCIRN 397
Query: 218 YGCDECGKMLKSRDSLNTHKKIQHEGKKVKVKYEYECDYCGAKYPNKYTLSDHISGHTGI 277
+ + TH + Y + C + Y L H HT
Sbjct: 398 -----FKRDSNLSLHIITHLSFRP--------YNCKNPPCSKSFNRHYNLIPHKKIHTNH 444
Query: 278 PNHICKICNK 287
+C I
Sbjct: 445 APLLCSILKS 454
>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 = 32.4 bits (74), Expect = 0.42
Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 16/73 (21%)
Query: 186 RRVTVCPKCNRDYRNPRNMRKHLRRVHTSVRKYGCDECG---------KMLKSRDSLNTH 236
+CP C ++Y++P + R H + + C CG + D+L
Sbjct: 116 ADFPLCPDCAKEYKDPLDRRFHAQPI-------ACPRCGPQLNFVSRGGHAEQDDALLEA 168
Query: 237 KKIQHEGKKVKVK 249
K+ +GK + +K
Sbjct: 169 AKLLKKGKIIAIK 181
>gnl|CDD|226535 COG4049, COG4049, Uncharacterized protein containing archaeal-type
C2H2 Zn-finger [General function prediction only].
Length = 65
Score = 29.6 bits (66), Expect = 0.42
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 314 FKCDLCDKEFFEKKKLNKHKNWAHGDKFHLCKVCGAKIK 352
+C C F +K +H N AHG F K G ++K
Sbjct: 18 LRCPRCGMVFRRRKDYIRHVNKAHGWLFGRGKPKGKRLK 56
>gnl|CDD|225600 COG3058, FdhE, Uncharacterized protein involved in formate
dehydrogenase formation [Posttranslational modification,
protein turnover, chaperones].
Length = 308
Score = 32.1 bits (73), Expect = 0.46
Identities = 12/42 (28%), Positives = 16/42 (38%)
Query: 332 HKNWAHGDKFHLCKVCGAKIKGSLKQHMITHTGERKYCCHIC 373
K + C VCG+ S+ Q T G R C +C
Sbjct: 176 GKARVENESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLC 217
>gnl|CDD|240345 PTZ00287, PTZ00287, 6-phosphofructokinase; Provisional.
Length = 1419
Score = 31.2 bits (70), Expect = 1.2
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 98 KISVSKHFECNYCHAKFSNKSLLSDH 123
+ ++ +F+CNYC+A N +LL DH
Sbjct: 516 RCAIPSNFDCNYCYALGYNAALLIDH 541
>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 = 28.4 bits (64), Expect = 2.1
Identities = 17/93 (18%), Positives = 27/93 (29%), Gaps = 24/93 (25%)
Query: 72 TCTMCKKTFRNKATFQKHMQRAH-------------------VGLKISVSKHFECNYCHA 112
C C T +HM ++H + KI EC YC
Sbjct: 1 DCLFCNHTSDTVEENLEHMFKSHGFFIPEREYLVDLEGLLNYLREKIHE--GNECLYCGK 58
Query: 113 KFSNKSLLSDHISS--HTGLKNYKCHVCDKAYS 143
+F + L H+ H + Y+ +
Sbjct: 59 QFKSLEALRQHMRDKGHCKI-PYETEEEKDEIA 90
>gnl|CDD|238278 cd00498, Hsp33, Heat shock protein 33 (Hsp33): Cytosolic protein
that acts as a molecular chaperone under oxidative
conditions. In normal (reducing) cytosolic conditions,
four conserved Cys residues are coordinated by a Zn ion.
Under oxidative stress (such as heat shock), the Cys
are reversibly oxidized to disulfide bonds, which causes
the chaperone activity to be turned on. Hsp33 is
homodimeric in its functional form.
Length = 275
Score = 29.1 bits (66), Expect = 3.4
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 11/50 (22%)
Query: 217 KYGCDECGKMLKSRDSLNTHKK--IQH---EGKKVKVKYEYECDYCGAKY 261
++ CD C + + +L T K + E ++V C++CG KY
Sbjct: 229 RFRCD-CSR-ERVAAALLTLGKEELADMIEEDGGIEVT----CEFCGEKY 272
>gnl|CDD|182368 PRK10306, PRK10306, zinc/cadmium-binding protein; Provisional.
Length = 216
Score = 28.6 bits (64), Expect = 4.1
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 236 HKKIQHEGKKVKVKYEYECDYCGAKYPNKYTLSDHI 271
+K + + K V+Y +EC +K P SDHI
Sbjct: 133 YKILTYASGKKGVRYLFECKDAESKAPKYVQFSDHI 168
>gnl|CDD|227504 COG5177, COG5177, Uncharacterized conserved protein [Function
unknown].
Length = 769
Score = 28.9 bits (64), Expect = 5.9
Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 12/72 (16%)
Query: 142 YSCRKALKTHTLL-HEQEKVIKSSKKEFIIDTGDCTLDEWNDFIKRRVTVCPKCNRDYRN 200
Y +K + +L H + +V S++ ++ G RRV +CP ++ +
Sbjct: 568 YEDKKTVHNFSLQRHFEYEVPLKSEESMVVQLG-----------HRRVDICPLISKGSNS 616
Query: 201 PRNMRKHLRRVH 212
P N +K+ RR+
Sbjct: 617 PNNNQKYFRRLK 628
>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 = 25.0 bits (55), Expect = 6.4
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 106 ECNYCHAKFSNKSLLSDHISSH 127
+C C FS KS L H+ +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 24.6 bits (54), Expect = 10.0
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 72 TCTMCKKTFRNKATFQKHMQR 92
C C K+F K+ ++H++
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRT 21
>gnl|CDD|223146 COG0068, HypF, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 750
Score = 28.5 bits (64), Expect = 6.6
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 7/34 (20%)
Query: 191 CPKCNRDYRNPRNMRKHLRRVHTSVRKYGCDECG 224
CP C+++Y++P N R H + + C +CG
Sbjct: 154 CPFCDKEYKDPLNRRFHAQPI-------ACPKCG 180
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 25.1 bits (55), Expect = 6.6
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 72 TCTMCKKTFRNKATFQKHMQR 92
C C K F++K+ ++HM+
Sbjct: 2 RCPECGKVFKSKSALREHMRT 22
Score = 25.1 bits (55), Expect = 7.1
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 105 FECNYCHAKFSNKSLLSDHISSH 127
+ C C F +KS L +H+ +H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>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 = 25.2 bits (56), Expect = 6.8
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 72 TCTMCKKTFRNKATFQKHMQ 91
C +C TF +++ + H++
Sbjct: 2 YCELCNVTFTSESQLKSHLR 21
>gnl|CDD|177458 PHA02676, PHA02676, A-type inclusion protein; Provisional.
Length = 520
Score = 28.3 bits (63), Expect = 7.1
Identities = 16/64 (25%), Positives = 23/64 (35%), Gaps = 8/64 (12%)
Query: 18 NLSGSCVVDVITADKWRALIKNKTKTCPICNKSYPGA--------RNMRKHLRLVHDKNS 69
GS V DK + ++ C +S GA MR++ LV +K
Sbjct: 401 GFDGSACVLPERVDKLLSPLEKTLAEAKTCCESNRGAGKHLEHHIETMRQYAVLVSNKTD 460
Query: 70 TTTC 73
TC
Sbjct: 461 VHTC 464
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 0.134 0.436
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,316,546
Number of extensions: 1639586
Number of successful extensions: 1919
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1898
Number of HSP's successfully gapped: 115
Length of query: 388
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 289
Effective length of database: 6,546,556
Effective search space: 1891954684
Effective search space used: 1891954684
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 60 (27.0 bits)