Query 035457
Match_columns 59
No_of_seqs 107 out of 327
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 03:06:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035457.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035457hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01571 A_thal_Cys_rich unch 99.4 1.2E-13 2.6E-18 85.2 3.0 30 1-30 75-104 (104)
2 PF04749 PLAC8: PLAC8 family; 99.2 8.2E-12 1.8E-16 74.4 2.5 28 1-28 79-106 (106)
3 PF04749 PLAC8: PLAC8 family; 67.9 6.4 0.00014 22.8 2.5 26 6-31 11-36 (106)
4 PF02318 FYVE_2: FYVE-type zin 63.8 3.2 6.8E-05 25.7 0.6 14 18-31 96-109 (118)
5 PRK13715 conjugal transfer pro 56.9 7.3 0.00016 22.8 1.3 19 15-33 54-72 (73)
6 PF04153 NOT2_3_5: NOT2 / NOT3 49.6 9.6 0.00021 24.2 1.1 13 24-36 73-85 (134)
7 PF02677 DUF208: Uncharacteriz 34.6 5.8 0.00013 27.0 -1.7 22 11-33 2-23 (176)
8 smart00792 Agouti Agouti prote 32.3 14 0.0003 24.2 -0.2 10 14-23 102-111 (124)
9 PRK10778 dksA RNA polymerase-b 32.3 35 0.00075 22.4 1.7 19 14-32 130-148 (151)
10 COG1103 Archaea-specific pyrid 29.9 30 0.00065 26.2 1.2 13 24-36 335-347 (382)
11 PRK11019 hypothetical protein; 28.7 40 0.00086 20.6 1.4 18 14-31 55-72 (88)
12 PF05768 DUF836: Glutaredoxin- 23.0 54 0.0012 18.5 1.2 15 17-31 8-22 (81)
13 PHA00080 DksA-like zinc finger 22.5 58 0.0013 18.8 1.3 17 14-30 50-66 (72)
14 KOG4196 bZIP transcription fac 20.7 38 0.00082 22.5 0.3 16 21-36 52-67 (135)
No 1
>TIGR01571 A_thal_Cys_rich uncharacterized Cys-rich domain. This model describes an uncharacterized domain of about 100 residues. It is common in plants but found also in Homo sapiens, Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.41 E-value=1.2e-13 Score=85.20 Aligned_cols=30 Identities=57% Similarity=1.081 Sum_probs=29.0
Q ss_pred CCCCCCcchHHHHHchhHHHHHHHHHHHHH
Q 035457 1 MLKDSPCGDCLVHFFCESFALCQEYRELKS 30 (59)
Q Consensus 1 ~I~gs~c~Dc~~~~~C~~CalcQe~RElk~ 30 (59)
||+||+++||++|+||++|++|||+||||+
T Consensus 75 ~i~gs~~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 75 GIQGAPCDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred CCCCCCcccchHHHHhhhHHHHHHHHHHhC
Confidence 799999999999999999999999999985
No 2
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.20 E-value=8.2e-12 Score=74.44 Aligned_cols=28 Identities=46% Similarity=0.815 Sum_probs=27.3
Q ss_pred CCCCCCcchHHHHHchhHHHHHHHHHHH
Q 035457 1 MLKDSPCGDCLVHFFCESFALCQEYREL 28 (59)
Q Consensus 1 ~I~gs~c~Dc~~~~~C~~CalcQe~REl 28 (59)
||+|+.++||++++||++||++||+|||
T Consensus 79 ~I~g~~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 79 GIQGSCCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred CCCCCChhhhHHHHHHHHHHHHHHHhhC
Confidence 7999999999999999999999999996
No 3
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=67.92 E-value=6.4 Score=22.85 Aligned_cols=26 Identities=23% Similarity=0.469 Sum_probs=21.1
Q ss_pred CcchHHHHHchhHHHHHHHHHHHHHh
Q 035457 6 PCGDCLVHFFCESFALCQEYRELKSR 31 (59)
Q Consensus 6 ~c~Dc~~~~~C~~CalcQe~RElk~r 31 (59)
.++-|+..+||+++++.|..+.|...
T Consensus 11 d~~~c~~~~~cPc~~~~~~~~~l~~~ 36 (106)
T PF04749_consen 11 DPGSCCLACFCPCCSFGQNAERLGDG 36 (106)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHhccC
Confidence 34457788999999999999988764
No 4
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=63.77 E-value=3.2 Score=25.71 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHh
Q 035457 18 SFALCQEYRELKSR 31 (59)
Q Consensus 18 ~CalcQe~RElk~r 31 (59)
.|.+||+.|||+.+
T Consensus 96 lC~vC~k~rel~~~ 109 (118)
T PF02318_consen 96 LCKVCQKQRELKKK 109 (118)
T ss_dssp EEHHHHHHHHHHHH
T ss_pred EChhhHHHHHHHHH
Confidence 48999999999887
No 5
>PRK13715 conjugal transfer protein TraR; Provisional
Probab=56.92 E-value=7.3 Score=22.81 Aligned_cols=19 Identities=21% Similarity=0.364 Sum_probs=15.9
Q ss_pred chhHHHHHHHHHHHHHhCC
Q 035457 15 FCESFALCQEYRELKSRGW 33 (59)
Q Consensus 15 ~C~~CalcQe~RElk~rg~ 33 (59)
.+..|.-||++.|.+.+.+
T Consensus 54 ~~~~Cv~Cq~~~E~~~~~~ 72 (73)
T PRK13715 54 GVTLCVECQAYQERQRKHY 72 (73)
T ss_pred CcCCCHHHHHHHHHHhccc
Confidence 6788999999999987643
No 6
>PF04153 NOT2_3_5: NOT2 / NOT3 / NOT5 family; InterPro: IPR007282 NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=49.56 E-value=9.6 Score=24.22 Aligned_cols=13 Identities=38% Similarity=0.754 Sum_probs=10.2
Q ss_pred HHHHHHHhCCCcc
Q 035457 24 EYRELKSRGWHGN 36 (59)
Q Consensus 24 e~RElk~rg~~~n 36 (59)
-++||++|||-=+
T Consensus 73 AA~eL~~R~Wryh 85 (134)
T PF04153_consen 73 AAKELYKRGWRYH 85 (134)
T ss_pred HHHHHHHCCcEEe
Confidence 4799999999443
No 7
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=34.65 E-value=5.8 Score=26.97 Aligned_cols=22 Identities=23% Similarity=0.609 Sum_probs=13.3
Q ss_pred HHHHchhHHHHHHHHHHHHHhCC
Q 035457 11 LVHFFCESFALCQEYRELKSRGW 33 (59)
Q Consensus 11 ~~~~~C~~CalcQe~RElk~rg~ 33 (59)
+.|.||.||+.- -.+.|+..|+
T Consensus 2 LLH~CCaPCs~~-~~~~L~~~g~ 23 (176)
T PF02677_consen 2 LLHICCAPCSTY-PLERLREEGF 23 (176)
T ss_pred eeeecCccccHH-HHHHHHHCCC
Confidence 579999999853 2333444433
No 8
>smart00792 Agouti Agouti protein. The agouti protein regulates pigmentation in the mouse hair follicle producing a black hair with a subapical yellow band. A highly homologous protein agouti signal protein (ASIP) is present in humans and is expressed at highest levels in adipose tissue where it may play a role in energy homeostasis and possibly human pigmentation PUBMED:11837451, PUBMED:11833005.
Probab=32.31 E-value=14 Score=24.23 Aligned_cols=10 Identities=30% Similarity=0.670 Sum_probs=6.9
Q ss_pred HchhHHHHHH
Q 035457 14 FFCESFALCQ 23 (59)
Q Consensus 14 ~~C~~CalcQ 23 (59)
-||.+||.||
T Consensus 102 ~CCdpCa~C~ 111 (124)
T smart00792 102 PCCDPCATCY 111 (124)
T ss_pred CCcCccchhh
Confidence 3677777776
No 9
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=32.30 E-value=35 Score=22.40 Aligned_cols=19 Identities=11% Similarity=0.226 Sum_probs=15.2
Q ss_pred HchhHHHHHHHHHHHHHhC
Q 035457 14 FFCESFALCQEYRELKSRG 32 (59)
Q Consensus 14 ~~C~~CalcQe~RElk~rg 32 (59)
-+...|.-||+.+|.+.+.
T Consensus 130 P~A~~CI~CQe~~E~~~~~ 148 (151)
T PRK10778 130 PTADLCIDCKTLAEIREKQ 148 (151)
T ss_pred CCccccHHHHHHHHHHhhh
Confidence 3677899999999987653
No 10
>COG1103 Archaea-specific pyridoxal phosphate-dependent enzymes [General function prediction only]
Probab=29.90 E-value=30 Score=26.22 Aligned_cols=13 Identities=62% Similarity=0.912 Sum_probs=11.0
Q ss_pred HHHHHHHhCCCcc
Q 035457 24 EYRELKSRGWHGN 36 (59)
Q Consensus 24 e~RElk~rg~~~n 36 (59)
.|+|||+||.+|.
T Consensus 335 lY~ELK~RgI~GI 347 (382)
T COG1103 335 LYEELKKRGIHGI 347 (382)
T ss_pred eHHHHHhcCcccc
Confidence 4899999988775
No 11
>PRK11019 hypothetical protein; Provisional
Probab=28.74 E-value=40 Score=20.55 Aligned_cols=18 Identities=17% Similarity=0.207 Sum_probs=15.0
Q ss_pred HchhHHHHHHHHHHHHHh
Q 035457 14 FFCESFALCQEYRELKSR 31 (59)
Q Consensus 14 ~~C~~CalcQe~RElk~r 31 (59)
-.+..|.-||+.+|.+.+
T Consensus 55 P~a~~Cv~Cq~~~E~~~k 72 (88)
T PRK11019 55 PGVRLCVACQQEKDLQQA 72 (88)
T ss_pred CCccccHHHHHHHHHHHh
Confidence 367889999999998865
No 12
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=22.99 E-value=54 Score=18.46 Aligned_cols=15 Identities=27% Similarity=0.527 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHHHh
Q 035457 17 ESFALCQEYRELKSR 31 (59)
Q Consensus 17 ~~CalcQe~RElk~r 31 (59)
+-|+||.+.+++-..
T Consensus 8 ~~C~LC~~a~~~L~~ 22 (81)
T PF05768_consen 8 PGCHLCDEAKEILEE 22 (81)
T ss_dssp SSSHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHH
Confidence 459999999987654
No 13
>PHA00080 DksA-like zinc finger domain containing protein
Probab=22.54 E-value=58 Score=18.84 Aligned_cols=17 Identities=47% Similarity=0.579 Sum_probs=13.6
Q ss_pred HchhHHHHHHHHHHHHH
Q 035457 14 FFCESFALCQEYRELKS 30 (59)
Q Consensus 14 ~~C~~CalcQe~RElk~ 30 (59)
-.+..|.-||+..|.++
T Consensus 50 P~~~~Cv~Cq~~~E~~~ 66 (72)
T PHA00080 50 PGCRTCVSCQEILELKS 66 (72)
T ss_pred CCccCcHHHHHHHHHHh
Confidence 36778999999999843
No 14
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=20.75 E-value=38 Score=22.50 Aligned_cols=16 Identities=44% Similarity=0.619 Sum_probs=12.8
Q ss_pred HHHHHHHHHHhCCCcc
Q 035457 21 LCQEYRELKSRGWHGN 36 (59)
Q Consensus 21 lcQe~RElk~rg~~~n 36 (59)
|=|-.|.||+||+..|
T Consensus 52 lKQrRRTLKNRGYA~s 67 (135)
T KOG4196|consen 52 LKQRRRTLKNRGYAQS 67 (135)
T ss_pred HHHHHHHHhhhhHHHH
Confidence 4578899999988766
Done!