Query 028317
Match_columns 210
No_of_seqs 110 out of 730
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 09:37:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028317.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028317hhsearch_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 6.2E-30 1.3E-34 196.3 7.0 104 34-165 1-104 (104)
2 PF04749 PLAC8: PLAC8 family; 99.9 7.2E-27 1.6E-31 176.8 5.4 102 36-163 1-106 (106)
3 PF05835 Synaphin: Synaphin pr 64.9 3.7 7.9E-05 33.4 1.4 16 126-141 63-78 (139)
4 PF06570 DUF1129: Protein of u 36.0 22 0.00048 29.9 1.6 18 123-140 189-206 (206)
5 PF04749 PLAC8: PLAC8 family; 29.5 25 0.00053 25.8 0.8 28 127-154 25-56 (106)
6 PF06397 Desulfoferrod_N: Desu 27.5 25 0.00054 22.1 0.4 13 12-24 4-16 (36)
7 TIGR00319 desulf_FeS4 desulfof 22.8 47 0.001 19.9 1.0 14 12-25 5-18 (34)
8 PF06679 DUF1180: Protein of u 21.3 29 0.00062 28.9 -0.2 17 125-141 117-135 (163)
9 cd00974 DSRD Desulforedoxin (D 19.6 60 0.0013 19.4 1.0 14 12-25 2-15 (34)
10 PF14714 KH_dom-like: KH-domai 18.8 81 0.0018 22.8 1.7 20 123-142 56-75 (80)
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=6.2e-30 Score=196.34 Aligned_cols=104 Identities=43% Similarity=0.972 Sum_probs=83.5
Q ss_pred CCCCcCcccccCCccccccccccchhHHHHHHHHhcCCCCCCccccccchhhhhhHHHHHhhhHhhccCCCcchhhhcch
Q 028317 34 EPWTTGIFGCTEDTESCWTGFFCPCVLFGRNVEKMREDTPWTHPCICHAVCIEGGVALAAATAVFHGIDPRTSFLICEGL 113 (210)
Q Consensus 34 ~~W~~GLcdC~~D~~~Cc~a~~CPCi~~g~~~~rl~~~~~~~~~C~C~~l~~~Gg~~~~~~~a~~~g~~p~~~~Li~~g~ 113 (210)
++|++|||||++|+++|++++||||+++|+|++|++.+. .+|. ..++.+.++.++ . +
T Consensus 1 ~~W~~gL~dC~~d~~~C~~~~~CPc~~~g~~~~~~~~~~---~~C~------~~~~~~~~~~~~-~------------~- 57 (104)
T TIGR01571 1 SNWSTGLFDCCEDIRLCLCGLFCPCCLFGQIAETLGTFA---GECL------CGGLTAIAMSAL-C------------G- 57 (104)
T ss_pred CCCCCCCccccCChhHHHHHHHHHHHHHHHHHHHhCCCC---Cchh------hHHHHHHHHHHH-H------------h-
Confidence 589999999999999999999999999999999999542 3442 122222211100 0 1
Q ss_pred hhhhhccccchhHHHHHHHHHcCCCCCCCccccccccchhHHHHHHHHHHHh
Q 028317 114 FFAWWMCGIYTGNLRQNLQKKYHLKNSPCEPCLVNCCLHWCALCQEHREMKN 165 (210)
Q Consensus 114 ~~~~~~~~v~~~~~R~~IR~kygI~Gs~~~Dcl~~~cC~~CaL~Qe~RElk~ 165 (210)
+.++|.+.+|++||+||||+|+.++||+.++||++|+|+||+||||+
T Consensus 58 -----~~~~~~~~~R~~~R~ry~i~gs~~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 58 -----FCGCYTCFIRIKLREKYGIQGAPCDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred -----HHHHHHHHHHHHHHHHhCCCCCCcccchHHHHhhhHHHHHHHHHHhC
Confidence 23467789999999999999999999999999999999999999984
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=99.93 E-value=7.2e-27 Score=176.79 Aligned_cols=102 Identities=34% Similarity=0.755 Sum_probs=79.4
Q ss_pred CCcCcccccCCccccccccccchhHHHHHHHHhcCCCCCCc----cccccchhhhhhHHHHHhhhHhhccCCCcchhhhc
Q 028317 36 WTTGIFGCTEDTESCWTGFFCPCVLFGRNVEKMREDTPWTH----PCICHAVCIEGGVALAAATAVFHGIDPRTSFLICE 111 (210)
Q Consensus 36 W~~GLcdC~~D~~~Cc~a~~CPCi~~g~~~~rl~~~~~~~~----~C~C~~l~~~Gg~~~~~~~a~~~g~~p~~~~Li~~ 111 (210)
|++|||||++|+++|++++||||++++++++|++.+....+ .|. .....+.. .
T Consensus 1 W~~gl~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~~~~C~------~~~~~~~~-----------------~ 57 (106)
T PF04749_consen 1 WSTGLCDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPAFGSCC------LCFCCFGC-----------------A 57 (106)
T ss_pred CCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCCCccHH------HHHHHHHH-----------------H
Confidence 99999999999999999999999999999999998753322 221 00000000 0
Q ss_pred chhhhhhccccchhHHHHHHHHHcCCCCCCCccccccccchhHHHHHHHHHH
Q 028317 112 GLFFAWWMCGIYTGNLRQNLQKKYHLKNSPCEPCLVNCCLHWCALCQEHREM 163 (210)
Q Consensus 112 g~~~~~~~~~v~~~~~R~~IR~kygI~Gs~~~Dcl~~~cC~~CaL~Qe~REl 163 (210)
.++ .+.++|.+.+|++||+||||+|+.++||++++||++|+|+||+|||
T Consensus 58 ~~~---~l~~~~~~~~R~~iR~ry~I~g~~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 58 ACL---GLGWCYGCSLRQQIRERYGIQGSCCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred HHH---HHhHhhhhhHHHHHHHHhCCCCCChhhhHHHHHHHHHHHHHHHhhC
Confidence 000 0123467899999999999999999999999999999999999996
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=64.95 E-value=3.7 Score=33.36 Aligned_cols=16 Identities=38% Similarity=0.713 Sum_probs=10.3
Q ss_pred HHHHHHHHHcCCCCCC
Q 028317 126 NLRQNLQKKYHLKNSP 141 (210)
Q Consensus 126 ~~R~~IR~kygI~Gs~ 141 (210)
..|..||.||||+.+.
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 5899999999999885
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=35.98 E-value=22 Score=29.94 Aligned_cols=18 Identities=39% Similarity=0.473 Sum_probs=15.1
Q ss_pred chhHHHHHHHHHcCCCCC
Q 028317 123 YTGNLRQNLQKKYHLKNS 140 (210)
Q Consensus 123 ~~~~~R~~IR~kygI~Gs 140 (210)
.....|.-+|+||||+|+
T Consensus 189 i~~~~~~~lkkk~~i~~~ 206 (206)
T PF06570_consen 189 IAFALRFYLKKKYNITGS 206 (206)
T ss_pred HHHHHHHHHHHHhCCCCC
Confidence 345789999999999986
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=29.50 E-value=25 Score=25.77 Aligned_cols=28 Identities=11% Similarity=0.160 Sum_probs=12.4
Q ss_pred HHHHHHHHcCCCCCC----CccccccccchhH
Q 028317 127 LRQNLQKKYHLKNSP----CEPCLVNCCLHWC 154 (210)
Q Consensus 127 ~R~~IR~kygI~Gs~----~~Dcl~~~cC~~C 154 (210)
.-.++.+|.+-.... ..+|+..+++..+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~~C~~~~~~~~~ 56 (106)
T PF04749_consen 25 SFGQNAERLGDGPRSRGPAFGSCCLCFCCFGC 56 (106)
T ss_pred HHHHHHHHhccCCccCCCCCccHHHHHHHHHH
Confidence 334444444443332 2455555554433
No 6
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=27.47 E-value=25 Score=22.12 Aligned_cols=13 Identities=31% Similarity=0.935 Sum_probs=8.1
Q ss_pred cceeeccCCCCCC
Q 028317 12 LRFLRCNECGQPL 24 (210)
Q Consensus 12 ~~~~~~~~~~q~~ 24 (210)
..|++|++||+.-
T Consensus 4 ~~~YkC~~CGniV 16 (36)
T PF06397_consen 4 GEFYKCEHCGNIV 16 (36)
T ss_dssp TEEEE-TTT--EE
T ss_pred ccEEEccCCCCEE
Confidence 5789999999875
No 7
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=22.85 E-value=47 Score=19.89 Aligned_cols=14 Identities=21% Similarity=0.665 Sum_probs=11.7
Q ss_pred cceeeccCCCCCCC
Q 028317 12 LRFLRCNECGQPLP 25 (210)
Q Consensus 12 ~~~~~~~~~~q~~p 25 (210)
++|++|++||+.--
T Consensus 5 ~~~ykC~~Cgniv~ 18 (34)
T TIGR00319 5 GQVYKCEVCGNIVE 18 (34)
T ss_pred CcEEEcCCCCcEEE
Confidence 67999999998763
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=21.26 E-value=29 Score=28.89 Aligned_cols=17 Identities=24% Similarity=0.339 Sum_probs=11.2
Q ss_pred hHHHHHHH--HHcCCCCCC
Q 028317 125 GNLRQNLQ--KKYHLKNSP 141 (210)
Q Consensus 125 ~~~R~~IR--~kygI~Gs~ 141 (210)
...|++.| +||||-++.
T Consensus 117 ~R~r~~~rktRkYgvl~~~ 135 (163)
T PF06679_consen 117 FRLRRRNRKTRKYGVLTTR 135 (163)
T ss_pred HhhccccccceeecccCCC
Confidence 34555445 699998775
No 9
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=19.56 E-value=60 Score=19.44 Aligned_cols=14 Identities=29% Similarity=0.819 Sum_probs=11.0
Q ss_pred cceeeccCCCCCCC
Q 028317 12 LRFLRCNECGQPLP 25 (210)
Q Consensus 12 ~~~~~~~~~~q~~p 25 (210)
+.|++|.+||+.--
T Consensus 2 ~~~ykC~~CGniv~ 15 (34)
T cd00974 2 LEVYKCEICGNIVE 15 (34)
T ss_pred CcEEEcCCCCcEEE
Confidence 46889999998763
No 10
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=18.78 E-value=81 Score=22.81 Aligned_cols=20 Identities=20% Similarity=0.507 Sum_probs=13.4
Q ss_pred chhHHHHHHHHHcCCCCCCC
Q 028317 123 YTGNLRQNLQKKYHLKNSPC 142 (210)
Q Consensus 123 ~~~~~R~~IR~kygI~Gs~~ 142 (210)
|.=.+..+||+.||++|.+.
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 44578899999999999874
Done!