Query 042250
Match_columns 186
No_of_seqs 115 out of 710
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 04:22:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042250.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042250hhsearch_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 100.0 7.7E-34 1.7E-38 213.6 7.6 104 54-157 1-104 (104)
2 PF04749 PLAC8: PLAC8 family; 100.0 4.8E-30 1E-34 190.2 6.1 99 56-155 1-106 (106)
3 PF05835 Synaphin: Synaphin pr 69.9 2.7 5.8E-05 33.4 1.5 15 118-132 63-77 (139)
4 PF06570 DUF1129: Protein of u 36.0 47 0.001 27.3 3.6 19 114-132 188-206 (206)
5 PF12273 RCR: Chitin synthesis 33.4 20 0.00043 27.4 0.9 15 116-130 18-32 (130)
6 TIGR01571 A_thal_Cys_rich unch 25.3 53 0.0011 24.3 1.9 7 119-125 95-101 (104)
7 PF14949 ARF7EP_C: ARF7 effect 21.7 33 0.00072 25.9 0.2 21 58-81 60-80 (103)
8 PF14714 KH_dom-like: KH-domai 19.6 81 0.0018 22.3 1.8 19 116-134 57-75 (80)
9 KOG3657 Mitochondrial DNA poly 16.1 81 0.0017 32.4 1.5 28 116-143 249-278 (1075)
10 COG4582 Uncharacterized protei 13.1 1.2E+02 0.0026 26.0 1.6 18 121-138 116-134 (244)
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=100.00 E-value=7.7e-34 Score=213.63 Aligned_cols=104 Identities=42% Similarity=0.873 Sum_probs=93.9
Q ss_pred CCCCcCcccccCCcchhhhhcchhHHHHHHHHHHhCCCCCccCchhhHHHHHHHhhhccccchhhHHHHHHHHhCCCCCC
Q 042250 54 KPWSTGLCDCCDDVSSCCLTCWCPCVAFGRIAEIVDRGSTSCGVSGSLYAIILCLTGCSCLYSCFYRSKLRGQYFLEESP 133 (186)
Q Consensus 54 ~~W~~gLf~C~~D~~~C~~~~fCPC~~~g~~a~rl~~g~~~C~~~~~l~~ll~~~~g~~~~~~~~~R~~iR~kygI~Gs~ 133 (186)
++|++|||||++|+++|++++||||+++|+++++++++..+|...++++.++..+.++.+++.+.+|++||+||||+|+.
T Consensus 1 ~~W~~gL~dC~~d~~~C~~~~~CPc~~~g~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~R~~~R~ry~i~gs~ 80 (104)
T TIGR01571 1 SNWSTGLFDCCEDIRLCLCGLFCPCCLFGQIAETLGTFAGECLCGGLTAIAMSALCGFCGCYTCFIRIKLREKYGIQGAP 80 (104)
T ss_pred CCCCCCCccccCChhHHHHHHHHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCCCCC
Confidence 58999999999999999999999999999999999976667877666666555556677889999999999999999999
Q ss_pred ccchhhhhcCcchhhhHHHHHHHh
Q 042250 134 CTDCCIHCCCEECSLCQEYRELTH 157 (186)
Q Consensus 134 c~Dc~~~~cC~pCal~Q~~REl~~ 157 (186)
++|+++++||+||+|+|++||||.
T Consensus 81 ~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 81 CDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred cccchHHHHhhhHHHHHHHHHHhC
Confidence 999999999999999999999984
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=99.96 E-value=4.8e-30 Score=190.17 Aligned_cols=99 Identities=48% Similarity=1.146 Sum_probs=83.7
Q ss_pred CCcCcccccCCcchhhhhcchhHHHHHHHHHHhCCCC-------CccCchhhHHHHHHHhhhccccchhhHHHHHHHHhC
Q 042250 56 WSTGLCDCCDDVSSCCLTCWCPCVAFGRIAEIVDRGS-------TSCGVSGSLYAIILCLTGCSCLYSCFYRSKLRGQYF 128 (186)
Q Consensus 56 W~~gLf~C~~D~~~C~~~~fCPC~~~g~~a~rl~~g~-------~~C~~~~~l~~ll~~~~g~~~~~~~~~R~~iR~kyg 128 (186)
|++|||||++|+++|++++||||+++++++++++.+. ..|....+++.++..+ ++.+++.+.+|++||+|||
T Consensus 1 W~~gl~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~~~~C~~~~~~~~~~~~~-~l~~~~~~~~R~~iR~ry~ 79 (106)
T PF04749_consen 1 WSTGLCDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPAFGSCCLCFCCFGCAACL-GLGWCYGCSLRQQIRERYG 79 (106)
T ss_pred CCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCCCccHHHHHHHHHHHHHH-HHhHhhhhhHHHHHHHHhC
Confidence 9999999999999999999999999999999998754 3444434444332222 3455688999999999999
Q ss_pred CCCCCccchhhhhcCcchhhhHHHHHH
Q 042250 129 LEESPCTDCCIHCCCEECSLCQEYREL 155 (186)
Q Consensus 129 I~Gs~c~Dc~~~~cC~pCal~Q~~REl 155 (186)
|+|+.++|+++++||+||||+||+|||
T Consensus 80 I~g~~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 80 IQGSCCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred CCCCChhhhHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999999999996
No 3
>PF05835 Synaphin: Synaphin protein; InterPro: IPR008849 This family consists of several eukaryotic synaphin 1 and 2 proteins. Synaphin/complexin is a cytosolic protein that preferentially binds to syntaxin within the SNARE complex. Synaphin promotes SNAREs to form precomplexes that oligomerise into higher order structures. A peptide from the central, syntaxin binding domain of synaphin competitively inhibits these two proteins from interacting and prevents SNARE complexes from oligomerising. It is thought that oligomerisation of SNARE complexes into a higher order structure creates a SNARE scaffold for efficient, regulated fusion of synaptic vesicles []. Synaphin promotes neuronal exocytosis by promoting interaction between the complementary syntaxin and synaptobrevin transmembrane regions that reside in opposing membranes prior to fusion [].; GO: 0019905 syntaxin binding, 0006836 neurotransmitter transport; PDB: 3RL0_m 3RK3_E 1L4A_E 1KIL_E.
Probab=69.94 E-value=2.7 Score=33.45 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=10.0
Q ss_pred hHHHHHHHHhCCCCC
Q 042250 118 FYRSKLRGQYFLEES 132 (186)
Q Consensus 118 ~~R~~iR~kygI~Gs 132 (186)
.+|..||.||+|+.+
T Consensus 63 ~mRq~IRdKY~l~k~ 77 (139)
T PF05835_consen 63 KMRQHIRDKYGLKKK 77 (139)
T ss_dssp HHHHHHHHHHT----
T ss_pred HHHHHHHhhcccccc
Confidence 469999999999976
No 4
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=35.96 E-value=47 Score=27.31 Aligned_cols=19 Identities=21% Similarity=0.261 Sum_probs=15.8
Q ss_pred cchhhHHHHHHHHhCCCCC
Q 042250 114 LYSCFYRSKLRGQYFLEES 132 (186)
Q Consensus 114 ~~~~~~R~~iR~kygI~Gs 132 (186)
+.....|.=+|+||||+|+
T Consensus 188 ~i~~~~~~~lkkk~~i~~~ 206 (206)
T PF06570_consen 188 VIAFALRFYLKKKYNITGS 206 (206)
T ss_pred HHHHHHHHHHHHHhCCCCC
Confidence 3456789999999999985
No 5
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=33.40 E-value=20 Score=27.43 Aligned_cols=15 Identities=13% Similarity=0.171 Sum_probs=7.2
Q ss_pred hhhHHHHHHHHhCCC
Q 042250 116 SCFYRSKLRGQYFLE 130 (186)
Q Consensus 116 ~~~~R~~iR~kygI~ 130 (186)
++..+.+=|+|-|++
T Consensus 18 ~~~~~~rRR~r~G~~ 32 (130)
T PF12273_consen 18 LFYCHNRRRRRRGLQ 32 (130)
T ss_pred HHHHHHHHHhhcCCC
Confidence 334444444444765
No 6
>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=25.32 E-value=53 Score=24.26 Aligned_cols=7 Identities=14% Similarity=0.059 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 042250 119 YRSKLRG 125 (186)
Q Consensus 119 ~R~~iR~ 125 (186)
+-++.||
T Consensus 95 lcQ~~RE 101 (104)
T TIGR01571 95 LCQEHRE 101 (104)
T ss_pred HHHHHHH
Confidence 3344443
No 7
>PF14949 ARF7EP_C: ARF7 effector protein C-terminus
Probab=21.71 E-value=33 Score=25.90 Aligned_cols=21 Identities=43% Similarity=1.094 Sum_probs=15.5
Q ss_pred cCcccccCCcchhhhhcchhHHHH
Q 042250 58 TGLCDCCDDVSSCCLTCWCPCVAF 81 (186)
Q Consensus 58 ~gLf~C~~D~~~C~~~~fCPC~~~ 81 (186)
.+||||++. =|.|+|.||--.
T Consensus 60 ~DlCDCL~~---~C~GC~~PC~~C 80 (103)
T PF14949_consen 60 KDLCDCLDE---DCPGCHYPCPKC 80 (103)
T ss_pred CccccccCC---CCCCccccCCCC
Confidence 478888765 567888898554
No 8
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=19.59 E-value=81 Score=22.32 Aligned_cols=19 Identities=21% Similarity=0.417 Sum_probs=12.7
Q ss_pred hhhHHHHHHHHhCCCCCCc
Q 042250 116 SCFYRSKLRGQYFLEESPC 134 (186)
Q Consensus 116 ~~~~R~~iR~kygI~Gs~c 134 (186)
.=.+..+||+.||++|.+.
T Consensus 57 ~ryL~n~lRe~f~f~G~Pi 75 (80)
T PF14714_consen 57 KRYLENQLREAFGFEGVPI 75 (80)
T ss_dssp HHHHHHHHHHHH--TTS--
T ss_pred HHHHHHHHHHHCCCCceeE
Confidence 4457899999999999864
No 9
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=16.14 E-value=81 Score=32.35 Aligned_cols=28 Identities=21% Similarity=0.299 Sum_probs=20.8
Q ss_pred hhhHHHHHHHHhCCCCCC--ccchhhhhcC
Q 042250 116 SCFYRSKLRGQYFLEESP--CTDCCIHCCC 143 (186)
Q Consensus 116 ~~~~R~~iR~kygI~Gs~--c~Dc~~~~cC 143 (186)
..+-|.+|||.|+|+||- ..|-+.-.-+
T Consensus 249 VsfDRaRirEeY~i~~Sk~rFlDTMSlHia 278 (1075)
T KOG3657|consen 249 VSFDRARIREEYNINGSKIRFLDTMSLHIA 278 (1075)
T ss_pred ccchHHHHHHHHhccccceeeeechhhhhh
Confidence 446799999999999984 4566554444
No 10
>COG4582 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=13.11 E-value=1.2e+02 Score=25.98 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=14.2
Q ss_pred HHHHHHhCCCCCCcc-chh
Q 042250 121 SKLRGQYFLEESPCT-DCC 138 (186)
Q Consensus 121 ~~iR~kygI~Gs~c~-Dc~ 138 (186)
+.||+|..|+|.+|. |.=
T Consensus 116 s~iRqR~~iPGG~C~FDLP 134 (244)
T COG4582 116 ALVRQRLSIPGGCCSFDLP 134 (244)
T ss_pred HHHHHHccCCCcccccCcH
Confidence 569999999998764 553
Done!