Query 041663
Match_columns 143
No_of_seqs 115 out of 741
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 09:25:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041663.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041663hhsearch_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 6.7E-35 1.5E-39 205.1 7.9 103 15-117 1-104 (104)
2 PF04749 PLAC8: PLAC8 family; 100.0 2.1E-31 4.5E-36 185.7 6.6 99 17-115 1-106 (106)
3 PF05835 Synaphin: Synaphin pr 76.5 1.6 3.4E-05 32.3 1.5 17 78-94 63-79 (139)
4 PF06570 DUF1129: Protein of u 67.6 6.6 0.00014 30.3 3.2 19 74-92 188-206 (206)
5 PF14714 KH_dom-like: KH-domai 35.0 31 0.00067 22.7 1.9 20 75-94 56-75 (80)
6 PF08114 PMP1_2: ATPase proteo 32.0 27 0.00058 20.6 1.0 28 63-90 14-41 (43)
7 PF12273 RCR: Chitin synthesis 31.3 30 0.00065 24.6 1.4 10 81-90 23-32 (130)
8 PF06679 DUF1180: Protein of u 29.0 22 0.00047 27.0 0.4 21 76-96 116-138 (163)
9 KOG3657 Mitochondrial DNA poly 25.7 40 0.00086 32.1 1.5 18 76-93 249-266 (1075)
10 cd01781 AF6_RA_repeat2 Ubiquit 19.5 74 0.0016 22.2 1.6 22 78-100 31-52 (100)
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=6.7e-35 Score=205.13 Aligned_cols=103 Identities=43% Similarity=0.752 Sum_probs=93.2
Q ss_pred CCCCcCCccccCCcchhhhhcchHHHHhhHHHHHhcCCCcccchHHHHHHHHh-hhhhccccchhHHHHHHHHhCCCCCC
Q 041663 15 GQWSTGLYDCCNDPSDCLFTCFCPCVTFGRIDEVIDGGNLSCNIQGLVYYAMC-HIASGWLYGGIYRSKLRRHYSLPEAS 93 (143)
Q Consensus 15 ~~W~~gL~dC~~d~~~Cl~~~~CPC~~~g~~~~~l~~g~~~c~~~~~l~~~l~-~~~~~~~~~~~~R~~iR~kygI~Gs~ 93 (143)
++|++|||||++|+++|++++||||+++|+++++++++..+|...++++++++ ++++.+++.+.+|++||+||||+||.
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 58999999999999999999999999999999999977667887776665554 34567889999999999999999999
Q ss_pred cccchhhhcchhhhhhhHHHHHHH
Q 041663 94 CSDSLIHCCCRACALTQEYTELKI 117 (143)
Q Consensus 94 ~~Dc~~~~~C~~Cal~Q~~rEl~~ 117 (143)
++|+++++||++|+++|++||||.
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=99.97 E-value=2.1e-31 Score=185.70 Aligned_cols=99 Identities=40% Similarity=0.939 Sum_probs=85.4
Q ss_pred CCcCCccccCCcchhhhhcchHHHHhhHHHHHhcCCC-------cccchHHHHHHHHhhhhhccccchhHHHHHHHHhCC
Q 041663 17 WSTGLYDCCNDPSDCLFTCFCPCVTFGRIDEVIDGGN-------LSCNIQGLVYYAMCHIASGWLYGGIYRSKLRRHYSL 89 (143)
Q Consensus 17 W~~gL~dC~~d~~~Cl~~~~CPC~~~g~~~~~l~~g~-------~~c~~~~~l~~~l~~~~~~~~~~~~~R~~iR~kygI 89 (143)
|++|||||++|+++|++++||||+++++++++++++. .+|....+++.++.++++.+++.+.+|++||+||||
T Consensus 1 W~~gl~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~~~~C~~~~~~~~~~~~~~l~~~~~~~~R~~iR~ry~I 80 (106)
T PF04749_consen 1 WSTGLCDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPAFGSCCLCFCCFGCAACLGLGWCYGCSLRQQIRERYGI 80 (106)
T ss_pred CCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCCCccHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHhCC
Confidence 9999999999999999999999999999999998754 355555555443322234566889999999999999
Q ss_pred CCCCcccchhhhcchhhhhhhHHHHH
Q 041663 90 PEASCSDSLIHCCCRACALTQEYTEL 115 (143)
Q Consensus 90 ~Gs~~~Dc~~~~~C~~Cal~Q~~rEl 115 (143)
+|+.++|+++++||++|||+||+|||
T Consensus 81 ~g~~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 81 QGSCCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred CCCChhhhHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999999996
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=76.50 E-value=1.6 Score=32.30 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=10.3
Q ss_pred hHHHHHHHHhCCCCCCc
Q 041663 78 IYRSKLRRHYSLPEASC 94 (143)
Q Consensus 78 ~~R~~iR~kygI~Gs~~ 94 (143)
.+|..||.||||+.+--
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 58999999999998743
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=67.62 E-value=6.6 Score=30.28 Aligned_cols=19 Identities=16% Similarity=0.305 Sum_probs=16.1
Q ss_pred ccchhHHHHHHHHhCCCCC
Q 041663 74 LYGGIYRSKLRRHYSLPEA 92 (143)
Q Consensus 74 ~~~~~~R~~iR~kygI~Gs 92 (143)
+..+..|.-+|+||||+|+
T Consensus 188 ~i~~~~~~~lkkk~~i~~~ 206 (206)
T PF06570_consen 188 VIAFALRFYLKKKYNITGS 206 (206)
T ss_pred HHHHHHHHHHHHHhCCCCC
Confidence 3466899999999999986
No 5
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=34.98 E-value=31 Score=22.72 Aligned_cols=20 Identities=15% Similarity=0.363 Sum_probs=13.2
Q ss_pred cchhHHHHHHHHhCCCCCCc
Q 041663 75 YGGIYRSKLRRHYSLPEASC 94 (143)
Q Consensus 75 ~~~~~R~~iR~kygI~Gs~~ 94 (143)
|.=.+..+||+.||++|..+
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 34467889999999999865
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=31.97 E-value=27 Score=20.56 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=18.0
Q ss_pred HHHHhhhhhccccchhHHHHHHHHhCCC
Q 041663 63 YYAMCHIASGWLYGGIYRSKLRRHYSLP 90 (143)
Q Consensus 63 ~~~l~~~~~~~~~~~~~R~~iR~kygI~ 90 (143)
|++.++.++..+.++..|+.+-+|-+++
T Consensus 14 F~lVglv~i~iva~~iYRKw~aRkr~l~ 41 (43)
T PF08114_consen 14 FCLVGLVGIGIVALFIYRKWQARKRALQ 41 (43)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444445555566778888887776665
No 7
>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=31.34 E-value=30 Score=24.63 Aligned_cols=10 Identities=30% Similarity=0.461 Sum_probs=4.7
Q ss_pred HHHHHHhCCC
Q 041663 81 SKLRRHYSLP 90 (143)
Q Consensus 81 ~~iR~kygI~ 90 (143)
.+=|+|.|++
T Consensus 23 ~rRR~r~G~~ 32 (130)
T PF12273_consen 23 NRRRRRRGLQ 32 (130)
T ss_pred HHHHhhcCCC
Confidence 3333443766
No 8
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=28.99 E-value=22 Score=26.96 Aligned_cols=21 Identities=19% Similarity=0.262 Sum_probs=13.8
Q ss_pred chhHHHHHH--HHhCCCCCCccc
Q 041663 76 GGIYRSKLR--RHYSLPEASCSD 96 (143)
Q Consensus 76 ~~~~R~~iR--~kygI~Gs~~~D 96 (143)
.+..|++.| +||||-++..++
T Consensus 116 ~~R~r~~~rktRkYgvl~~~~~~ 138 (163)
T PF06679_consen 116 TFRLRRRNRKTRKYGVLTTRAEN 138 (163)
T ss_pred HHhhccccccceeecccCCCccc
Confidence 445565455 699999876444
No 9
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=25.65 E-value=40 Score=32.11 Aligned_cols=18 Identities=17% Similarity=0.429 Sum_probs=15.5
Q ss_pred chhHHHHHHHHhCCCCCC
Q 041663 76 GGIYRSKLRRHYSLPEAS 93 (143)
Q Consensus 76 ~~~~R~~iR~kygI~Gs~ 93 (143)
+..=|.+||+.|+|+||-
T Consensus 249 VsfDRaRirEeY~i~~Sk 266 (1075)
T KOG3657|consen 249 VSFDRARIREEYNINGSK 266 (1075)
T ss_pred ccchHHHHHHHHhccccc
Confidence 447899999999999983
No 10
>cd01781 AF6_RA_repeat2 Ubiquitin domain of AT-6, second repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=19.47 E-value=74 Score=22.15 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=16.6
Q ss_pred hHHHHHHHHhCCCCCCcccchhh
Q 041663 78 IYRSKLRRHYSLPEASCSDSLIH 100 (143)
Q Consensus 78 ~~R~~iR~kygI~Gs~~~Dc~~~ 100 (143)
.+|..+ +|||++.+..+|++..
T Consensus 31 vV~eAL-eKygL~~e~p~~Y~Lv 52 (100)
T cd01781 31 IVGEAL-EKYGLEKSDPDDYCLV 52 (100)
T ss_pred HHHHHH-HHhCCCccCccceEEE
Confidence 455444 8999999988887653
Done!