Query 040417
Match_columns 144
No_of_seqs 110 out of 663
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:12:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040417.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040417hhsearch_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 3.8E-29 8.3E-34 178.2 8.2 96 5-115 9-104 (104)
2 PF04749 PLAC8: PLAC8 family; 99.9 1.5E-25 3.3E-30 157.6 7.9 96 4-113 6-106 (106)
3 PF05835 Synaphin: Synaphin pr 74.3 1.8 3.8E-05 32.5 1.3 16 76-91 63-78 (139)
4 PF06570 DUF1129: Protein of u 62.1 11 0.00023 29.5 3.5 19 72-90 188-206 (206)
5 PF04749 PLAC8: PLAC8 family; 58.3 12 0.00025 25.5 2.8 27 91-117 11-37 (106)
6 TIGR01571 A_thal_Cys_rich unch 47.7 18 0.00038 25.3 2.3 12 105-116 62-73 (104)
7 KOG3657 Mitochondrial DNA poly 41.3 14 0.00031 35.4 1.4 18 74-91 249-266 (1075)
8 PF15471 TMEM171: Transmembran 34.7 3 6.6E-05 34.8 -3.7 100 10-142 123-231 (319)
9 PF14714 KH_dom-like: KH-domai 33.1 31 0.00068 23.1 1.7 20 73-92 56-75 (80)
10 PF06679 DUF1180: Protein of u 20.1 42 0.00091 25.8 0.5 20 74-93 116-137 (163)
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=99.96 E-value=3.8e-29 Score=178.19 Aligned_cols=96 Identities=44% Similarity=0.865 Sum_probs=80.6
Q ss_pred cCCCCccchhhhcchhHHHHHHHHHHhCCCCCcCcchHHHHHHHHHHHHhhhhcccccccCCccccccchhhHHHHHHHH
Q 040417 5 LGRKSLGASCIGLFCPWYLFGKNAEFLGSGTFTGSCLTHFITWAFVNTVCCLLTDGILLGLPGCFVSCYACGYRRTLRTK 84 (144)
Q Consensus 5 ~~~~D~~~C~~~~~CPC~~~g~~a~rl~~~~~~~~C~~~~~~~~ll~~~ccl~~~g~~~~~~gc~~~~~~~~~R~~iR~r 84 (144)
.+++|+++|++++||||+++|||++|++++. ++|...+++|.+++.++ + +.++|.+.+|++||+|
T Consensus 9 dC~~d~~~C~~~~~CPc~~~g~~~~~~~~~~--~~C~~~~~~~~~~~~~~------------~-~~~~~~~~~R~~~R~r 73 (104)
T TIGR01571 9 DCCEDIRLCLCGLFCPCCLFGQIAETLGTFA--GECLCGGLTAIAMSALC------------G-FCGCYTCFIRIKLREK 73 (104)
T ss_pred cccCChhHHHHHHHHHHHHHHHHHHHhCCCC--CchhhHHHHHHHHHHHH------------h-HHHHHHHHHHHHHHHH
Confidence 4589999999999999999999999999653 36877776665543321 1 1135788999999999
Q ss_pred cCCCCCCcchhhHHhhhhhHHhhHHHHHHHh
Q 040417 85 YNLPEAPCGDFVTHFFCHLCAICQEYREIRE 115 (144)
Q Consensus 85 ygI~Gs~~~D~l~~~cC~~Cal~Qe~REl~~ 115 (144)
|||+||.++|++.++||++|+++||+||||+
T Consensus 74 y~i~gs~~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 74 YGIQGAPCDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred hCCCCCCcccchHHHHhhhHHHHHHHHHHhC
Confidence 9999999999999999999999999999984
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=99.92 E-value=1.5e-25 Score=157.56 Aligned_cols=96 Identities=38% Similarity=0.758 Sum_probs=76.1
Q ss_pred ccCCCCccchhhhcchhHHHHHHHHHHhCCCCC-----cCcchHHHHHHHHHHHHhhhhcccccccCCccccccchhhHH
Q 040417 4 YLGRKSLGASCIGLFCPWYLFGKNAEFLGSGTF-----TGSCLTHFITWAFVNTVCCLLTDGILLGLPGCFVSCYACGYR 78 (144)
Q Consensus 4 ~~~~~D~~~C~~~~~CPC~~~g~~a~rl~~~~~-----~~~C~~~~~~~~ll~~~ccl~~~g~~~~~~gc~~~~~~~~~R 78 (144)
+.+++|+++|++++||||+++++|++|++.+.. ..+|....+.+.++.. +++ .+++.+.+|
T Consensus 6 ~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~~~~C~~~~~~~~~~~~----------~~l----~~~~~~~~R 71 (106)
T PF04749_consen 6 CDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPAFGSCCLCFCCFGCAAC----------LGL----GWCYGCSLR 71 (106)
T ss_pred CCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCCCccHHHHHHHHHHHHH----------HHH----hHhhhhhHH
Confidence 356899999999999999999999999998642 1345554444332210 011 123678999
Q ss_pred HHHHHHcCCCCCCcchhhHHhhhhhHHhhHHHHHH
Q 040417 79 RTLRTKYNLPEAPCGDFVTHFFCHLCAICQEYREI 113 (144)
Q Consensus 79 ~~iR~rygI~Gs~~~D~l~~~cC~~Cal~Qe~REl 113 (144)
++||+||||+|+.++|+++++||++|+++||+|||
T Consensus 72 ~~iR~ry~I~g~~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 72 QQIRERYGIQGSCCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred HHHHHHhCCCCCChhhhHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999999999999999996
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=74.34 E-value=1.8 Score=32.53 Aligned_cols=16 Identities=31% Similarity=0.567 Sum_probs=9.9
Q ss_pred hHHHHHHHHcCCCCCC
Q 040417 76 GYRRTLRTKYNLPEAP 91 (144)
Q Consensus 76 ~~R~~iR~rygI~Gs~ 91 (144)
-.|+.||.||||+-+-
T Consensus 63 ~mRq~IRdKY~l~k~e 78 (139)
T PF05835_consen 63 KMRQHIRDKYGLKKKE 78 (139)
T ss_dssp HHHHHHHHHHT-----
T ss_pred HHHHHHHhhccccccc
Confidence 3699999999999874
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=62.06 E-value=11 Score=29.45 Aligned_cols=19 Identities=32% Similarity=0.454 Sum_probs=16.2
Q ss_pred cchhhHHHHHHHHcCCCCC
Q 040417 72 CYACGYRRTLRTKYNLPEA 90 (144)
Q Consensus 72 ~~~~~~R~~iR~rygI~Gs 90 (144)
+..+..|..+|+||||+|+
T Consensus 188 ~i~~~~~~~lkkk~~i~~~ 206 (206)
T PF06570_consen 188 VIAFALRFYLKKKYNITGS 206 (206)
T ss_pred HHHHHHHHHHHHHhCCCCC
Confidence 3567789999999999986
No 5
>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=58.30 E-value=12 Score=25.46 Aligned_cols=27 Identities=19% Similarity=0.411 Sum_probs=19.9
Q ss_pred CcchhhHHhhhhhHHhhHHHHHHHhhc
Q 040417 91 PCGDFVTHFFCHLCAICQEYREIRERS 117 (144)
Q Consensus 91 ~~~D~l~~~cC~~Cal~Qe~REl~~r~ 117 (144)
+.+-++.++||++++..|..+.++...
T Consensus 11 d~~~c~~~~~cPc~~~~~~~~~l~~~~ 37 (106)
T PF04749_consen 11 DPGSCCLACFCPCCSFGQNAERLGDGP 37 (106)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 445677788888888888888777553
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=47.69 E-value=18 Score=25.34 Aligned_cols=12 Identities=25% Similarity=0.396 Sum_probs=6.5
Q ss_pred HhhHHHHHHHhh
Q 040417 105 AICQEYREIRER 116 (144)
Q Consensus 105 al~Qe~REl~~r 116 (144)
......+++++|
T Consensus 62 ~~~~~R~~~R~r 73 (104)
T TIGR01571 62 YTCFIRIKLREK 73 (104)
T ss_pred HHHHHHHHHHHH
Confidence 445555555555
No 7
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=41.30 E-value=14 Score=35.39 Aligned_cols=18 Identities=22% Similarity=0.333 Sum_probs=15.5
Q ss_pred hhhHHHHHHHHcCCCCCC
Q 040417 74 ACGYRRTLRTKYNLPEAP 91 (144)
Q Consensus 74 ~~~~R~~iR~rygI~Gs~ 91 (144)
...-|++|||.|||+||-
T Consensus 249 VsfDRaRirEeY~i~~Sk 266 (1075)
T KOG3657|consen 249 VSFDRARIREEYNINGSK 266 (1075)
T ss_pred ccchHHHHHHHHhccccc
Confidence 346899999999999983
No 8
>PF15471 TMEM171: Transmembrane protein family 171
Probab=34.71 E-value=3 Score=34.80 Aligned_cols=100 Identities=19% Similarity=0.210 Sum_probs=53.3
Q ss_pred ccchhhhcchhHHHHHHHHHHhCCCCC----cCcchHHHHHHHHHHHHhhhhcccccccCCccccccchhhHHHHHHHHc
Q 040417 10 LGASCIGLFCPWYLFGKNAEFLGSGTF----TGSCLTHFITWAFVNTVCCLLTDGILLGLPGCFVSCYACGYRRTLRTKY 85 (144)
Q Consensus 10 ~~~C~~~~~CPC~~~g~~a~rl~~~~~----~~~C~~~~~~~~ll~~~ccl~~~g~~~~~~gc~~~~~~~~~R~~iR~ry 85 (144)
+=+-.++.|-|-+-.++..+-+++.+. ..-|....+= ++ |.++.+.|. -+..=..++||.
T Consensus 123 mLISvLGiWVPGC~~~w~~~~lN~T~t~~~e~q~CGFLslQ--Im---------GPlIVl~GL-----CFFVVAHvKKr~ 186 (319)
T PF15471_consen 123 MLISVLGIWVPGCGSGWPQEPLNETDTSDSEPQICGFLSLQ--IM---------GPLIVLVGL-----CFFVVAHVKKRN 186 (319)
T ss_pred hhhhhheeeecCCCCCCccccccCCCCCCCCccccceeehh--hh---------hhHHHHHhh-----hhhheeeeeecc
Confidence 345567788888888888888887542 1235432110 11 111111121 112334678889
Q ss_pred CCCCCCcchhhHHhhhhhHHhhHHHHHHHhhcCCCCC-----CcccccccCCCccccccCCC
Q 040417 86 NLPEAPCGDFVTHFFCHLCAICQEYREIRERSSDANP-----PDLSLAVVTVPPTQTMESGS 142 (144)
Q Consensus 86 gI~Gs~~~D~l~~~cC~~Cal~Qe~REl~~r~~~~~~-----~~~~~~~~~pp~~q~m~~~~ 142 (144)
|+.++ |++-|.+.|..+..- -.-++++-+|||+....+.+
T Consensus 187 nln~~-----------------qd~se~Ee~~~qs~Ep~qVTVGDaViiFPPPPPPYF~ess 231 (319)
T PF15471_consen 187 NLNGS-----------------QDASESEEGQTQSTEPVQVTVGDAVIIFPPPPPPYFPESS 231 (319)
T ss_pred CCCcc-----------------cCccccccCCCCCCCCEEEEecCEEEEcCCccCCCCCCCC
Confidence 99655 777777775544432 11222333677766665543
No 9
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=33.09 E-value=31 Score=23.07 Aligned_cols=20 Identities=20% Similarity=0.383 Sum_probs=13.7
Q ss_pred chhhHHHHHHHHcCCCCCCc
Q 040417 73 YACGYRRTLRTKYNLPEAPC 92 (144)
Q Consensus 73 ~~~~~R~~iR~rygI~Gs~~ 92 (144)
|.=.+..++|+.||++|+++
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 55677889999999999875
No 10
>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=20.14 E-value=42 Score=25.77 Aligned_cols=20 Identities=25% Similarity=0.330 Sum_probs=12.7
Q ss_pred hhhHHHHHH--HHcCCCCCCcc
Q 040417 74 ACGYRRTLR--TKYNLPEAPCG 93 (144)
Q Consensus 74 ~~~~R~~iR--~rygI~Gs~~~ 93 (144)
.+..|.+.| +||||-++..+
T Consensus 116 ~~R~r~~~rktRkYgvl~~~~~ 137 (163)
T PF06679_consen 116 TFRLRRRNRKTRKYGVLTTRAE 137 (163)
T ss_pred HHhhccccccceeecccCCCcc
Confidence 344554455 69999987643
Done!