Query 044885
Match_columns 114
No_of_seqs 113 out of 642
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 07:43:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044885.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044885hhsearch_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 99.9 3.2E-28 6.9E-33 166.1 7.0 86 1-86 18-104 (104)
2 PF04749 PLAC8: PLAC8 family; 99.9 4.2E-25 9.2E-30 148.3 5.9 83 2-84 17-106 (106)
3 PF05835 Synaphin: Synaphin pr 72.0 2.5 5.4E-05 30.4 1.6 17 47-63 63-79 (139)
4 PF04749 PLAC8: PLAC8 family; 56.8 12 0.00027 24.2 2.6 20 66-85 15-34 (106)
5 PF06570 DUF1129: Protein of u 53.3 21 0.00045 26.5 3.7 18 44-61 189-206 (206)
6 PF08114 PMP1_2: ATPase proteo 51.4 15 0.00033 21.2 2.0 29 31-59 13-41 (43)
7 TIGR01571 A_thal_Cys_rich unch 44.3 21 0.00046 23.8 2.3 18 48-68 27-44 (104)
8 PF14714 KH_dom-like: KH-domai 42.1 24 0.00053 22.6 2.2 20 44-63 56-75 (80)
9 PF12273 RCR: Chitin synthesis 26.4 64 0.0014 22.1 2.4 17 46-62 19-35 (130)
10 TIGR02328 conserved hypothetic 26.0 82 0.0018 22.1 2.8 25 78-102 55-79 (120)
11 KOG3312 Predicted membrane pro 24.8 1.9E+02 0.0041 21.4 4.6 43 54-96 129-171 (186)
12 KOG3657 Mitochondrial DNA poly 24.5 45 0.00097 30.9 1.6 18 45-62 249-266 (1075)
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=99.95 E-value=3.2e-28 Score=166.07 Aligned_cols=86 Identities=42% Similarity=0.729 Sum_probs=77.5
Q ss_pred CeeeeccHHHHHHHHHHhhCCCCccchhHHHHHHHHH-hhhhhhhhhhHHHHHHHHhCCCCCCcchhhHHhhhhHHHhhH
Q 044885 1 CITCWLPCVTFGQIAEILDEGQSSCCTQGFVYVILSL-FACNCLLSCVYRGKLRKKYGLQGNSFCDCCVHCFCETCALCQ 79 (114)
Q Consensus 1 cl~~~CPC~~~g~~a~rl~~g~~~C~~~~~l~~~l~~-~g~~~~~~~~~R~~iR~ky~I~g~~~~D~l~~~~C~~Cal~Q 79 (114)
++++||||+++|+|+++++++..+|...+++|++++. +|+.|++...+|++||+||||+|++++|+++++||++|+++|
T Consensus 18 ~~~~~CPc~~~g~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~R~~~R~ry~i~gs~~~D~~~~~~C~~C~lcQ 97 (104)
T TIGR01571 18 LCGLFCPCCLFGQIAETLGTFAGECLCGGLTAIAMSALCGFCGCYTCFIRIKLREKYGIQGAPCDDCLTHLFCCFCALCQ 97 (104)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCCCCCcccchHHHHhhhHHHHH
Confidence 3689999999999999999777789888877766654 377889999999999999999999999999999999999999
Q ss_pred HHHHHHh
Q 044885 80 EHAELRS 86 (114)
Q Consensus 80 e~rEl~~ 86 (114)
|+||||+
T Consensus 98 ~~RElk~ 104 (104)
T TIGR01571 98 EHRELKM 104 (104)
T ss_pred HHHHHhC
Confidence 9999984
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=99.91 E-value=4.2e-25 Score=148.34 Aligned_cols=83 Identities=40% Similarity=0.900 Sum_probs=69.9
Q ss_pred eeeeccHHHHHHHHHHhhCCC-------CccchhHHHHHHHHHhhhhhhhhhhHHHHHHHHhCCCCCCcchhhHHhhhhH
Q 044885 2 ITCWLPCVTFGQIAEILDEGQ-------SSCCTQGFVYVILSLFACNCLLSCVYRGKLRKKYGLQGNSFCDCCVHCFCET 74 (114)
Q Consensus 2 l~~~CPC~~~g~~a~rl~~g~-------~~C~~~~~l~~~l~~~g~~~~~~~~~R~~iR~ky~I~g~~~~D~l~~~~C~~ 74 (114)
+++||||+++++++++++++. .+|....+++.++.++++.+++...+|++||+||||+|+.++|+++++||+|
T Consensus 17 ~~~~cPc~~~~~~~~~l~~~~~~~~~~~~~C~~~~~~~~~~~~~~l~~~~~~~~R~~iR~ry~I~g~~~~D~~~~~~C~~ 96 (106)
T PF04749_consen 17 LACFCPCCSFGQNAERLGDGPRSRGPAFGSCCLCFCCFGCAACLGLGWCYGCSLRQQIRERYGIQGSCCEDCCCSCCCPP 96 (106)
T ss_pred HHHHHHHHHHHHHHHHhccCCccCCCCCccHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHhCCCCCChhhhHHHHHHHH
Confidence 678999999999999998764 4566555555444322446668899999999999999999999999999999
Q ss_pred HHhhHHHHHH
Q 044885 75 CALCQEHAEL 84 (114)
Q Consensus 75 Cal~Qe~rEl 84 (114)
|+|+||+|||
T Consensus 97 Cal~Q~~rEl 106 (106)
T PF04749_consen 97 CALCQEAREL 106 (106)
T ss_pred HHHHHHHhhC
Confidence 9999999996
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=71.96 E-value=2.5 Score=30.38 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=10.0
Q ss_pred hHHHHHHHHhCCCCCCc
Q 044885 47 VYRGKLRKKYGLQGNSF 63 (114)
Q Consensus 47 ~~R~~iR~ky~I~g~~~ 63 (114)
..|..||.||+|+.+.-
T Consensus 63 ~mRq~IRdKY~l~k~e~ 79 (139)
T PF05835_consen 63 KMRQHIRDKYGLKKKEE 79 (139)
T ss_dssp HHHHHHHHHHT------
T ss_pred HHHHHHHhhcccccccc
Confidence 47999999999998754
No 4
>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=56.77 E-value=12 Score=24.15 Aligned_cols=20 Identities=40% Similarity=1.195 Sum_probs=8.7
Q ss_pred hhHHhhhhHHHhhHHHHHHH
Q 044885 66 CCVHCFCETCALCQEHAELR 85 (114)
Q Consensus 66 ~l~~~~C~~Cal~Qe~rEl~ 85 (114)
++.++||+++++.|..+.++
T Consensus 15 c~~~~~cPc~~~~~~~~~l~ 34 (106)
T PF04749_consen 15 CCLACFCPCCSFGQNAERLG 34 (106)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 33444444444444444443
No 5
>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=53.28 E-value=21 Score=26.50 Aligned_cols=18 Identities=33% Similarity=0.597 Sum_probs=15.2
Q ss_pred hhhhHHHHHHHHhCCCCC
Q 044885 44 LSCVYRGKLRKKYGLQGN 61 (114)
Q Consensus 44 ~~~~~R~~iR~ky~I~g~ 61 (114)
.....|.-+|+||||+|+
T Consensus 189 i~~~~~~~lkkk~~i~~~ 206 (206)
T PF06570_consen 189 IAFALRFYLKKKYNITGS 206 (206)
T ss_pred HHHHHHHHHHHHhCCCCC
Confidence 456788899999999986
No 6
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=51.36 E-value=15 Score=21.18 Aligned_cols=29 Identities=24% Similarity=0.393 Sum_probs=20.4
Q ss_pred HHHHHHHhhhhhhhhhhHHHHHHHHhCCC
Q 044885 31 VYVILSLFACNCLLSCVYRGKLRKKYGLQ 59 (114)
Q Consensus 31 l~~~l~~~g~~~~~~~~~R~~iR~ky~I~ 59 (114)
+|++.++.+++-+....+|+.+-+|-+++
T Consensus 13 VF~lVglv~i~iva~~iYRKw~aRkr~l~ 41 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRKWQARKRALQ 41 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555555666677788899888887765
No 7
>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=44.31 E-value=21 Score=23.78 Aligned_cols=18 Identities=17% Similarity=0.392 Sum_probs=9.7
Q ss_pred HHHHHHHHhCCCCCCcchhhH
Q 044885 48 YRGKLRKKYGLQGNSFCDCCV 68 (114)
Q Consensus 48 ~R~~iR~ky~I~g~~~~D~l~ 68 (114)
+=.++.++++ +...++..
T Consensus 27 ~~g~~~~~~~---~~~~~C~~ 44 (104)
T TIGR01571 27 LFGQIAETLG---TFAGECLC 44 (104)
T ss_pred HHHHHHHHhC---CCCCchhh
Confidence 3345566666 55555543
No 8
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=42.05 E-value=24 Score=22.58 Aligned_cols=20 Identities=20% Similarity=0.497 Sum_probs=13.5
Q ss_pred hhhhHHHHHHHHhCCCCCCc
Q 044885 44 LSCVYRGKLRKKYGLQGNSF 63 (114)
Q Consensus 44 ~~~~~R~~iR~ky~I~g~~~ 63 (114)
|.=.+..+||+.||++|.++
T Consensus 56 Y~ryL~n~lRe~f~f~G~Pi 75 (80)
T PF14714_consen 56 YKRYLENQLREAFGFEGVPI 75 (80)
T ss_dssp HHHHHHHHHHHHH--TTS--
T ss_pred HHHHHHHHHHHHCCCCceeE
Confidence 45567889999999999875
No 9
>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=26.35 E-value=64 Score=22.15 Aligned_cols=17 Identities=24% Similarity=0.284 Sum_probs=7.6
Q ss_pred hhHHHHHHHHhCCCCCC
Q 044885 46 CVYRGKLRKKYGLQGNS 62 (114)
Q Consensus 46 ~~~R~~iR~ky~I~g~~ 62 (114)
+..+.+-|+|.|++--.
T Consensus 19 ~~~~~rRR~r~G~~P~~ 35 (130)
T PF12273_consen 19 FYCHNRRRRRRGLQPIY 35 (130)
T ss_pred HHHHHHHHhhcCCCCcC
Confidence 33333444444665433
No 10
>TIGR02328 conserved hypothetical protein. Members of this protein are found in a small number of taxonomically well separated species, yet are strongly conserved, suggesting lateral gene transfer. Members are found in Treponema denticola, Clostridium acetobutylicum, and several of the Firmicutes. The function of this protein is unknown.
Probab=26.02 E-value=82 Score=22.12 Aligned_cols=25 Identities=20% Similarity=0.316 Sum_probs=20.2
Q ss_pred hHHHHHHHhcCCCCCCCccCCCCCC
Q 044885 78 CQEHAELRSRGLDPSRGWDGQPITA 102 (114)
Q Consensus 78 ~Qe~rEl~~r~~~~~~g~~~~~~~~ 102 (114)
-+...||+.||++|..-|-+..=++
T Consensus 55 ~lv~~EM~~RGY~~~~~W~d~~yRG 79 (120)
T TIGR02328 55 LLVMEEMATRGYHVSKQWLDPNYRG 79 (120)
T ss_pred HHHHHHHHHcCCCCChhhcCccccC
Confidence 4567899999999999898777544
No 11
>KOG3312 consensus Predicted membrane protein [Function unknown]
Probab=24.77 E-value=1.9e+02 Score=21.45 Aligned_cols=43 Identities=21% Similarity=0.421 Sum_probs=30.5
Q ss_pred HHhCCCCCCcchhhHHhhhhHHHhhHHHHHHHhcCCCCCCCcc
Q 044885 54 KKYGLQGNSFCDCCVHCFCETCALCQEHAELRSRGLDPSRGWD 96 (114)
Q Consensus 54 ~ky~I~g~~~~D~l~~~~C~~Cal~Qe~rEl~~r~~~~~~g~~ 96 (114)
.+.|+.|+...||-..+---.|++.=-..--+.-|..|..+-.
T Consensus 129 SHRnL~GdD~TDCSfiFLYiLCtmsiRqNlQK~LGfaPsRaaa 171 (186)
T KOG3312|consen 129 SHRNLKGDDMTDCSFIFLYILCTMSIRQNLQKILGFAPSRAAA 171 (186)
T ss_pred cccCCCCCCccchHHHHHHHHHHHHHHHHHHHHhCcCCchhHh
Confidence 4569999999999887777777665444444666777776433
No 12
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=24.53 E-value=45 Score=30.94 Aligned_cols=18 Identities=22% Similarity=0.621 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHhCCCCCC
Q 044885 45 SCVYRGKLRKKYGLQGNS 62 (114)
Q Consensus 45 ~~~~R~~iR~ky~I~g~~ 62 (114)
..+-|.+||+.|+|+||.
T Consensus 249 VsfDRaRirEeY~i~~Sk 266 (1075)
T KOG3657|consen 249 VSFDRARIREEYNINGSK 266 (1075)
T ss_pred ccchHHHHHHHHhccccc
Confidence 456799999999999986
Done!