Query 035020
Match_columns 76
No_of_seqs 96 out of 98
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 08:32:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035020.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035020hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09803 DUF2346: Uncharacteri 99.9 1.8E-27 3.9E-32 151.7 3.3 68 6-76 1-68 (80)
2 KOG4702 Uncharacterized conser 99.6 4.4E-17 9.6E-22 103.4 1.5 61 6-69 1-61 (77)
3 COG4840 Uncharacterized protei 71.3 4 8.7E-05 25.8 2.2 19 56-74 53-71 (71)
4 PF12107 VEK-30: Plasminogen ( 62.4 3.6 7.8E-05 19.6 0.5 11 66-76 2-12 (17)
5 PF10550 Toxin_36: Conantokin- 59.0 11 0.00024 17.3 1.8 13 60-72 3-15 (15)
6 PF06569 DUF1128: Protein of u 56.9 11 0.00023 23.8 2.2 19 56-74 53-71 (71)
7 PRK00247 putative inner membra 42.8 8.1 0.00018 31.3 0.0 39 22-64 247-292 (429)
8 TIGR02976 phageshock_pspB phag 40.0 11 0.00023 23.7 0.2 28 18-45 4-31 (75)
9 PF07106 TBPIP: Tat binding pr 38.5 41 0.00089 22.9 3.0 31 44-74 55-86 (169)
10 PF04889 Cwf_Cwc_15: Cwf15/Cwc 36.2 23 0.0005 26.4 1.5 18 59-76 145-162 (244)
11 PRK09458 pspB phage shock prot 36.0 30 0.00066 22.0 1.8 28 17-44 3-30 (75)
12 PF06667 PspB: Phage shock pro 33.8 15 0.00032 23.2 0.1 27 18-44 4-30 (75)
13 PF08285 DPM3: Dolichol-phosph 32.4 54 0.0012 21.1 2.6 15 14-28 46-60 (91)
14 PF07438 DUF1514: Protein of u 30.1 44 0.00096 20.9 1.8 16 60-75 48-63 (66)
15 KOG0025 Zn2+-binding dehydroge 29.8 37 0.0008 27.2 1.8 44 20-73 270-313 (354)
16 cd04765 HTH_MlrA-like_sg2 Heli 29.4 47 0.001 21.0 2.0 37 35-75 62-98 (99)
17 PRK09848 glucuronide transport 29.0 49 0.0011 24.8 2.3 17 60-76 432-448 (448)
18 COG5420 Uncharacterized conser 28.9 58 0.0013 20.5 2.2 19 58-76 53-71 (71)
19 TIGR02431 pcaR_pcaU beta-ketoa 27.8 78 0.0017 22.5 3.0 39 32-75 146-184 (248)
20 PF05620 DUF788: Protein of un 27.8 39 0.00084 23.4 1.5 15 16-30 117-131 (170)
21 PHA02709 hypothetical protein; 27.6 12 0.00025 21.5 -1.0 14 11-24 24-37 (44)
22 PF10406 TAF8_C: Transcription 27.2 1.3E+02 0.0028 17.2 3.4 39 34-72 4-42 (51)
23 PRK10983 putative inner membra 26.5 20 0.00044 27.7 -0.2 16 59-74 352-367 (368)
24 KOG3269 Predicted membrane pro 24.5 43 0.00093 24.5 1.2 15 16-30 123-137 (180)
25 KOG3379 Diadenosine polyphosph 24.3 78 0.0017 22.6 2.5 20 55-74 129-148 (150)
26 PRK15090 DNA-binding transcrip 23.4 1E+02 0.0022 22.0 3.0 39 32-75 152-190 (257)
27 PF08776 VASP_tetra: VASP tetr 23.2 75 0.0016 18.0 1.8 13 62-74 13-25 (40)
28 cd00427 Ribosomal_L29_HIP Ribo 22.8 85 0.0018 18.1 2.1 16 59-74 37-52 (57)
29 PF11712 Vma12: Endoplasmic re 22.5 1.2E+02 0.0027 20.2 3.1 23 47-69 9-31 (142)
30 PF08628 Nexin_C: Sorting nexi 22.4 1E+02 0.0023 19.4 2.6 21 32-52 35-55 (113)
31 COG5509 Uncharacterized small 21.1 81 0.0018 19.6 1.8 15 60-74 39-53 (65)
No 1
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=99.94 E-value=1.8e-27 Score=151.67 Aligned_cols=68 Identities=35% Similarity=0.553 Sum_probs=62.7
Q ss_pred CCcchhhhhhhhhhhhhhhheeeeeccCchhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHhhhcC
Q 035020 6 TSKGILEIAKFGIYVGVPVFLMYTFANNTKNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARNKNIR 76 (76)
Q Consensus 6 ~~~~~LEifKFg~Yl~fPI~~my~fg~~~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~r~~r 76 (76)
+.||+||||||||||+||||+|||| ||||++++++.++++.+|||+++.+ ++|++++++++.++|++|
T Consensus 1 Mgg~~LEvfKfg~Yv~fPI~~~~~f-N~pe~f~~~v~~~~~~~~ppe~~~~--~~ele~~~~~~~~k~~~r 68 (80)
T PF09803_consen 1 MGGWNLEVFKFGMYVFFPIGMFYYF-NQPEWFEKWVIKRKRELYPPENEEI--REELEEFKEELRKKREER 68 (80)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHhc-CCcHHHHHHhHHHhcccCCCCCccc--HHHHHHHHHHHHHHHHHH
Confidence 4689999999999999999998877 9999999999999999999998874 899999999999888764
No 2
>KOG4702 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.64 E-value=4.4e-17 Score=103.36 Aligned_cols=61 Identities=25% Similarity=0.382 Sum_probs=53.5
Q ss_pred CCcchhhhhhhhhhhhhhhheeeeeccCchhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHH
Q 035020 6 TSKGILEIAKFGIYVGVPVFLMYTFANNTKNIQKFMGNRSYVEYPPEGPRPPSPEELREMAREL 69 (76)
Q Consensus 6 ~~~~~LEifKFg~Yl~fPI~~my~fg~~~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~El 69 (76)
+.+|.||++||++|++|||++++.| |||++++.++.+++++.|||++..+ -+|.++.-+|.
T Consensus 1 MG~wkLE~~rm~~y~tFPV~~Fwlf-NQpe~Fee~v~~~krel~ppe~~~~--~EE~~~~lRe~ 61 (77)
T KOG4702|consen 1 MGGWKLETGRMLLYITFPVGAFWLF-NQPEIFEEFVRGYKRELSPPEATKR--KEEYENFLREQ 61 (77)
T ss_pred CCceeeehhhhhhhhhhhHHHHHHc-cChHHHHHHHHhccccCCChHHHhh--HHHHHHHHHHH
Confidence 3579999999999999999997755 9999999999999999999998876 47777766665
No 3
>COG4840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.34 E-value=4 Score=25.82 Aligned_cols=19 Identities=37% Similarity=0.546 Sum_probs=16.8
Q ss_pred CCChHHHHHHHHHHHHhhh
Q 035020 56 PPSPEELREMARELARNKN 74 (76)
Q Consensus 56 ~~~p~E~~ei~~Elar~r~ 74 (76)
+=+|.|..-|+.||+|+|+
T Consensus 53 nfSpsEmqaiA~eL~rlRk 71 (71)
T COG4840 53 NFSPSEMQAIADELGRLRK 71 (71)
T ss_pred cCCHHHHHHHHHHHHHhhC
Confidence 4569999999999999985
No 4
>PF12107 VEK-30: Plasminogen (Pg) ligand in fibrinolytic pathway; InterPro: IPR021965 Pg is an important mediator of angiostatin production in the fibrinolytic pathway. Pg is made up of five subunit kringle molecules (Pg-K1 to Pg-K5), of which the first three make the protein angiostatin. VEK-30 is a domain of the group A streptococcal protein PAM. It binds to Pg-K2 of angiostatin and activates the molecule to mediate its anti-angiogenic effects. VEK-30 binds to angiostatin via a C-terminal lysine with argininyl and glutamyl side chain residues known as a 'through space isostere' [].; PDB: 2KJ4_B 2DOI_B 2DOH_C 1I5K_D.
Probab=62.36 E-value=3.6 Score=19.57 Aligned_cols=11 Identities=55% Similarity=0.537 Sum_probs=8.6
Q ss_pred HHHHHHhhhcC
Q 035020 66 ARELARNKNIR 76 (76)
Q Consensus 66 ~~Elar~r~~r 76 (76)
.+||+|++++|
T Consensus 2 ~aeLerLkner 12 (17)
T PF12107_consen 2 EAELERLKNER 12 (17)
T ss_dssp HHHHHHHHHHH
T ss_pred hHHHHHHHHhc
Confidence 36899998875
No 5
>PF10550 Toxin_36: Conantokin-G mollusc-toxin; InterPro: IPR005918 The conantokins are a family of neuroactive peptides found in the venoms of fish-hunting cone snails. They possess a relatively high number of residues (4-5) of the non-standard amino acid gamma-carboxyglutamic acid (Gla), which is generated by the post-translational modification of glutamate (Glu) residues. Conantokins are the only naturally produced peptides known to be N-methyl-D-aspartate (NMDA) receptor antagonists and show therapeutic promise in treating conditions associated with NMDA receptor dysfunction. In animal models they have exhibited anticonvulsant and anti-Parkinsonian properties and have provided neuroprotection within therapeutically acceptable times following transient focal brain ischemia [, , , ]. Upon binding of Ca2+ to Gla, conantokin undergoes a conformational transition from a distorted curvilinear 3(10) helix to a linear alpha-helix. The binding of Ca2+ to conantokin leads to the exposure of a hydrophobic region on the opposite face of the helix []. Conantokins share relatively few sequence elements, which include include sequence identity at the first four residues, homologous positioning of the two most C-terminal Gla residues, and an Arg preceding the most C-terminal Gla []. The conantokin family is currently known to include: Conotoxin G from Conus geographus (Geography cone) (Nubecula geographus). Conantokin-L from Conus lynceus (Lynceus cone). Conantokin-R from Conus radiatus (Rayed cone). Conantokin-T from Conus tulipa (Fish-hunting cone snail) (Tulip cone). ; PDB: 1ONT_A.
Probab=58.96 E-value=11 Score=17.29 Aligned_cols=13 Identities=62% Similarity=0.802 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHh
Q 035020 60 EELREMARELARN 72 (76)
Q Consensus 60 ~E~~ei~~Elar~ 72 (76)
+|...|.+||||.
T Consensus 3 ee~~km~~~lare 15 (15)
T PF10550_consen 3 EEVAKMAAELARE 15 (15)
T ss_dssp HHHHHHHHHH-HH
T ss_pred HHHHHHHHHHhcC
Confidence 5778899999873
No 6
>PF06569 DUF1128: Protein of unknown function (DUF1128); InterPro: IPR009507 This family consists of several short, hypothetical bacterial proteins of unknown function.
Probab=56.94 E-value=11 Score=23.79 Aligned_cols=19 Identities=32% Similarity=0.525 Sum_probs=16.7
Q ss_pred CCChHHHHHHHHHHHHhhh
Q 035020 56 PPSPEELREMARELARNKN 74 (76)
Q Consensus 56 ~~~p~E~~ei~~Elar~r~ 74 (76)
.=+|.|...|..||.++|+
T Consensus 53 ~fS~sEm~aI~~ELG~LRK 71 (71)
T PF06569_consen 53 SFSPSEMQAIAEELGQLRK 71 (71)
T ss_pred CCCHHHHHHHHHHHHhhcC
Confidence 4469999999999999985
No 7
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=42.75 E-value=8.1 Score=31.25 Aligned_cols=39 Identities=15% Similarity=0.219 Sum_probs=19.8
Q ss_pred hhhheeeeecc-Cchh------hhhhhcCcceeeCCCCCCCCCChHHHHH
Q 035020 22 VPVFLMYTFAN-NTKN------IQKFMGNRSYVEYPPEGPRPPSPEELRE 64 (76)
Q Consensus 22 fPI~~my~fg~-~~d~------~~~~~~~~~~~~~Ppe~~~~~~p~E~~e 64 (76)
||+|+++|+.. |... .+.++++ .||-.+.-+.--.|.+.
T Consensus 247 ~PaallLYWv~snlwtl~Qq~i~~~~l~~----~~P~~~~~~~~~~~~~~ 292 (429)
T PRK00247 247 FPTAIALYWVANNLWTLIQNIIMYLILER----KYPLTDEFKEHHAEQRA 292 (429)
T ss_pred chHHHHHHHHHhhHHHHHHHHHHHHHHHH----hcCCCcchHHHHHHHHH
Confidence 58888766653 3322 2333443 57766655433344333
No 8
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=40.04 E-value=11 Score=23.71 Aligned_cols=28 Identities=14% Similarity=0.419 Sum_probs=21.6
Q ss_pred hhhhhhhheeeeeccCchhhhhhhcCcc
Q 035020 18 IYVGVPVFLMYTFANNTKNIQKFMGNRS 45 (76)
Q Consensus 18 ~Yl~fPI~~my~fg~~~d~~~~~~~~~~ 45 (76)
.++++|++++..|...++-+..+..+++
T Consensus 4 ~fl~~Pliif~ifVap~wl~lHY~~k~~ 31 (75)
T TIGR02976 4 FFLAIPLIIFVIFVAPLWLILHYRSKRK 31 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4788998888777778888888887543
No 9
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=38.49 E-value=41 Score=22.87 Aligned_cols=31 Identities=26% Similarity=0.483 Sum_probs=23.0
Q ss_pred cceeeCCCCCCCC-CChHHHHHHHHHHHHhhh
Q 035020 44 RSYVEYPPEGPRP-PSPEELREMARELARNKN 74 (76)
Q Consensus 44 ~~~~~~Ppe~~~~-~~p~E~~ei~~Elar~r~ 74 (76)
+..++|+.++... ..++|+.++..|+..+++
T Consensus 55 KqkiY~~~Q~~~~~~s~eel~~ld~ei~~L~~ 86 (169)
T PF07106_consen 55 KQKIYFANQDELEVPSPEELAELDAEIKELRE 86 (169)
T ss_pred ceEEEeeCccccCCCCchhHHHHHHHHHHHHH
Confidence 4577888877754 567888888888877765
No 10
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=36.22 E-value=23 Score=26.43 Aligned_cols=18 Identities=28% Similarity=0.423 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHhhhcC
Q 035020 59 PEELREMARELARNKNIR 76 (76)
Q Consensus 59 p~E~~ei~~Elar~r~~r 76 (76)
-.|-.++.+||+++|++|
T Consensus 145 eDd~~~Ll~ELekIKkER 162 (244)
T PF04889_consen 145 EDDTAALLRELEKIKKER 162 (244)
T ss_pred chHHHHHHHHHHHHHHHH
Confidence 356788999999999876
No 11
>PRK09458 pspB phage shock protein B; Provisional
Probab=35.97 E-value=30 Score=21.97 Aligned_cols=28 Identities=11% Similarity=0.338 Sum_probs=21.9
Q ss_pred hhhhhhhhheeeeeccCchhhhhhhcCc
Q 035020 17 GIYVGVPVFLMYTFANNTKNIQKFMGNR 44 (76)
Q Consensus 17 g~Yl~fPI~~my~fg~~~d~~~~~~~~~ 44 (76)
.+++++|++++..|-.+.+=...+..++
T Consensus 3 ~~fl~~PliiF~ifVaPiWL~LHY~sk~ 30 (75)
T PRK09458 3 ALFLAIPLTIFVLFVAPIWLWLHYRSKR 30 (75)
T ss_pred chHHHHhHHHHHHHHHHHHHHHhhcccc
Confidence 3578899888888877888888887754
No 12
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=33.75 E-value=15 Score=23.17 Aligned_cols=27 Identities=15% Similarity=0.251 Sum_probs=19.9
Q ss_pred hhhhhhhheeeeeccCchhhhhhhcCc
Q 035020 18 IYVGVPVFLMYTFANNTKNIQKFMGNR 44 (76)
Q Consensus 18 ~Yl~fPI~~my~fg~~~d~~~~~~~~~ 44 (76)
.++++|++++..|...++=...+..++
T Consensus 4 ~fl~~plivf~ifVap~WL~lHY~sk~ 30 (75)
T PF06667_consen 4 EFLFVPLIVFMIFVAPIWLILHYRSKW 30 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 467788888777777777777777753
No 13
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=32.35 E-value=54 Score=21.09 Aligned_cols=15 Identities=20% Similarity=0.164 Sum_probs=9.6
Q ss_pred hhhhhhhhhhhheee
Q 035020 14 AKFGIYVGVPVFLMY 28 (76)
Q Consensus 14 fKFg~Yl~fPI~~my 28 (76)
.=||.|..+=|+.-.
T Consensus 46 v~fG~Ysl~~lgy~v 60 (91)
T PF08285_consen 46 VSFGCYSLFTLGYGV 60 (91)
T ss_pred HHHHHHHHHHHHHhh
Confidence 447777777766544
No 14
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=30.05 E-value=44 Score=20.87 Aligned_cols=16 Identities=38% Similarity=0.349 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhhc
Q 035020 60 EELREMARELARNKNI 75 (76)
Q Consensus 60 ~E~~ei~~Elar~r~~ 75 (76)
++++|...|++|++++
T Consensus 48 ~gl~~~~~e~~r~~~~ 63 (66)
T PF07438_consen 48 EGLEEYEIEIERIKKD 63 (66)
T ss_pred chHHHHHHHHHHHHHH
Confidence 6789999999999874
No 15
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=29.85 E-value=37 Score=27.17 Aligned_cols=44 Identities=32% Similarity=0.327 Sum_probs=30.4
Q ss_pred hhhhhheeeeeccCchhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHhh
Q 035020 20 VGVPVFLMYTFANNTKNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARNK 73 (76)
Q Consensus 20 l~fPI~~my~fg~~~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~r 73 (76)
+.+|..+.+ | .|..-+--|+++|+.+ |++|+|..|+..|+..+-
T Consensus 270 v~~~ts~lI-F-Kdl~~rGfWvt~W~~~--------~~~pe~~~~~i~~~~~l~ 313 (354)
T KOG0025|consen 270 VTVPTSLLI-F-KDLKLRGFWVTRWKKE--------HKSPEERKEMIDELCDLY 313 (354)
T ss_pred cccccchhe-e-ccceeeeeeeeehhhc--------cCCcHHHHHHHHHHHHHH
Confidence 345666632 4 7777777788854333 566899999999987653
No 16
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=29.41 E-value=47 Score=21.05 Aligned_cols=37 Identities=14% Similarity=0.166 Sum_probs=23.7
Q ss_pred hhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHhhhc
Q 035020 35 KNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARNKNI 75 (76)
Q Consensus 35 d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~r~~ 75 (76)
+....++.......||.++-. ..+.++++||+.+|++
T Consensus 62 ~~i~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~ 98 (99)
T cd04765 62 EGAKQALKEDGAAAIREEEAE----ERLPSIRAELLDLRDQ 98 (99)
T ss_pred HHHHHHHHhccccccchhhHH----HHHHHHHHHHHHHHhc
Confidence 444444544333345555443 7799999999999875
No 17
>PRK09848 glucuronide transporter; Provisional
Probab=29.02 E-value=49 Score=24.75 Aligned_cols=17 Identities=18% Similarity=0.522 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHhhhcC
Q 035020 60 EELREMARELARNKNIR 76 (76)
Q Consensus 60 ~E~~ei~~Elar~r~~r 76 (76)
++.+|+++||+++|++|
T Consensus 432 ~~~~~~~~~l~~~~~~~ 448 (448)
T PRK09848 432 KKFKEIVVEIDNRKKVQ 448 (448)
T ss_pred HHHHHHHHHHHHhhhcC
Confidence 34678999999888764
No 18
>COG5420 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=28.91 E-value=58 Score=20.51 Aligned_cols=19 Identities=37% Similarity=0.427 Sum_probs=15.2
Q ss_pred ChHHHHHHHHHHHHhhhcC
Q 035020 58 SPEELREMARELARNKNIR 76 (76)
Q Consensus 58 ~p~E~~ei~~Elar~r~~r 76 (76)
+=.|+++.++||+.+.+.|
T Consensus 53 ~yaeLD~~k~ELaklena~ 71 (71)
T COG5420 53 AYAELDAAKRELAKLENAQ 71 (71)
T ss_pred HHHHHHHHHHHHHHhhccC
Confidence 3468899999999988754
No 19
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=27.79 E-value=78 Score=22.45 Aligned_cols=39 Identities=8% Similarity=0.184 Sum_probs=26.7
Q ss_pred cCchhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHhhhc
Q 035020 32 NNTKNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARNKNI 75 (76)
Q Consensus 32 ~~~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~r~~ 75 (76)
-+++....+..+ .|.+..++..+.+.+++.+||+++|++
T Consensus 146 ~~~~~~~~~l~~-----~~~~~~t~~t~~~~~~l~~~l~~ir~~ 184 (248)
T TIGR02431 146 LDDEELDEYLAR-----STLQALTPRTITDRDALLAELLAVRAQ 184 (248)
T ss_pred CCHHHHHHHHhC-----CCCccCCCCCCCCHHHHHHHHHHHHHc
Confidence 456667777763 334444444567788999999999875
No 20
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=27.77 E-value=39 Score=23.42 Aligned_cols=15 Identities=20% Similarity=0.720 Sum_probs=11.1
Q ss_pred hhhhhhhhhheeeee
Q 035020 16 FGIYVGVPVFLMYTF 30 (76)
Q Consensus 16 Fg~Yl~fPI~~my~f 30 (76)
+-+|+.+|+.+.|-.
T Consensus 117 w~l~LvIP~ya~Ykl 131 (170)
T PF05620_consen 117 WWLYLVIPGYAIYKL 131 (170)
T ss_pred HHHHHHHHHHHHHHH
Confidence 346888999887755
No 21
>PHA02709 hypothetical protein; Provisional
Probab=27.62 E-value=12 Score=21.55 Aligned_cols=14 Identities=36% Similarity=0.671 Sum_probs=11.1
Q ss_pred hhhhhhhhhhhhhh
Q 035020 11 LEIAKFGIYVGVPV 24 (76)
Q Consensus 11 LEifKFg~Yl~fPI 24 (76)
.-+.||.+|+++|-
T Consensus 24 ivvgkfliymfi~s 37 (44)
T PHA02709 24 IVVGKFLIYMFIPS 37 (44)
T ss_pred hhhheeeeEEEecc
Confidence 55789999988874
No 22
>PF10406 TAF8_C: Transcription factor TFIID complex subunit 8 C-term ; InterPro: IPR019473 This entry represents the C-terminal region of subunit 8 (also known as TAF8) of the transcription factor TFIID []. The adjacent N-terminal region generally contains a histone fold domain (IPR006565 from INTERPRO). This subunit is one of the key subunits of TFIID, being one of several general cofactors which are typically involved in gene activation to bring about the communication between gene-specific transcription factors and components of the general transcription machinery [].
Probab=27.24 E-value=1.3e+02 Score=17.15 Aligned_cols=39 Identities=26% Similarity=0.353 Sum_probs=23.8
Q ss_pred chhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHh
Q 035020 34 TKNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARN 72 (76)
Q Consensus 34 ~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~ 72 (76)
|+++=.+++.+-|..=|-......-+..+++...|..|.
T Consensus 4 P~~lP~fP~~HTY~~Tp~~~~~~~d~~~~r~~~~~~~r~ 42 (51)
T PF10406_consen 4 PDWLPPFPPPHTYKRTPIYNERETDPKKIREKAAEQSRL 42 (51)
T ss_pred cccCCCCCCCcccccCCCCCCCCCCHHHHHHHHHHHHHH
Confidence 456667777777777666655544455555555555543
No 23
>PRK10983 putative inner membrane protein; Provisional
Probab=26.51 E-value=20 Score=27.71 Aligned_cols=16 Identities=19% Similarity=0.316 Sum_probs=10.9
Q ss_pred hHHHHHHHHHHHHhhh
Q 035020 59 PEELREMARELARNKN 74 (76)
Q Consensus 59 p~E~~ei~~Elar~r~ 74 (76)
+.|.+|+-+|++.+.+
T Consensus 352 ~~~~~~~~~~~~~~~~ 367 (368)
T PRK10983 352 TDQPEEILEELEEIEK 367 (368)
T ss_pred CCChhHHHHHHHhccC
Confidence 5666777778877643
No 24
>KOG3269 consensus Predicted membrane protein [Function unknown]
Probab=24.54 E-value=43 Score=24.52 Aligned_cols=15 Identities=20% Similarity=0.476 Sum_probs=12.1
Q ss_pred hhhhhhhhhheeeee
Q 035020 16 FGIYVGVPVFLMYTF 30 (76)
Q Consensus 16 Fg~Yl~fPI~~my~f 30 (76)
|..|+++||...|-.
T Consensus 123 w~~lLl~P~~a~yk~ 137 (180)
T KOG3269|consen 123 WASLLLIPIFAGYKA 137 (180)
T ss_pred HHHHHHhhHHHHHHH
Confidence 467899999997755
No 25
>KOG3379 consensus Diadenosine polyphosphate hydrolase and related proteins of the histidine triad (HIT) family [Nucleotide transport and metabolism; General function prediction only]
Probab=24.31 E-value=78 Score=22.59 Aligned_cols=20 Identities=35% Similarity=0.496 Sum_probs=16.8
Q ss_pred CCCChHHHHHHHHHHHHhhh
Q 035020 55 RPPSPEELREMARELARNKN 74 (76)
Q Consensus 55 ~~~~p~E~~ei~~Elar~r~ 74 (76)
..+.|..++||++|.++.|+
T Consensus 129 ~~r~~Rs~eEM~eEA~~lr~ 148 (150)
T KOG3379|consen 129 EDRKPRSLEEMAEEAQRLRE 148 (150)
T ss_pred ccCCcchHHHHHHHHHHHHh
Confidence 34558999999999999886
No 26
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=23.37 E-value=1e+02 Score=21.99 Aligned_cols=39 Identities=3% Similarity=0.084 Sum_probs=25.4
Q ss_pred cCchhhhhhhcCcceeeCCCCCCCCCChHHHHHHHHHHHHhhhc
Q 035020 32 NNTKNIQKFMGNRSYVEYPPEGPRPPSPEELREMARELARNKNI 75 (76)
Q Consensus 32 ~~~d~~~~~~~~~~~~~~Ppe~~~~~~p~E~~ei~~Elar~r~~ 75 (76)
.+++.+..+... ++-+..++..+.+.+++.+||++.|++
T Consensus 152 ~~~~~~~~~l~~-----~~~~~~t~~t~~~~~~l~~~l~~iR~~ 190 (257)
T PRK15090 152 RDRDEVREILSG-----VEFKRSTEKTITSTEALLPVLDQVREQ 190 (257)
T ss_pred CCHHHHHHHHcc-----CCCCcCCCCCCCCHHHHHHHHHHHHHh
Confidence 455666666653 233334444466778899999999875
No 27
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=23.20 E-value=75 Score=18.03 Aligned_cols=13 Identities=38% Similarity=0.608 Sum_probs=9.3
Q ss_pred HHHHHHHHHHhhh
Q 035020 62 LREMARELARNKN 74 (76)
Q Consensus 62 ~~ei~~Elar~r~ 74 (76)
++|+++||..+|.
T Consensus 13 L~EvrkEl~K~K~ 25 (40)
T PF08776_consen 13 LEEVRKELQKVKE 25 (40)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5677777777765
No 28
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=22.79 E-value=85 Score=18.08 Aligned_cols=16 Identities=31% Similarity=0.715 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHhhh
Q 035020 59 PEELREMARELARNKN 74 (76)
Q Consensus 59 p~E~~ei~~Elar~r~ 74 (76)
|..+.++++++||++-
T Consensus 37 ~~~~~~~Rr~IARi~T 52 (57)
T cd00427 37 PHRIRKVRKDIARIKT 52 (57)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 7889999999999863
No 29
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=22.50 E-value=1.2e+02 Score=20.18 Aligned_cols=23 Identities=35% Similarity=0.702 Sum_probs=10.0
Q ss_pred eeCCCCCCCCCChHHHHHHHHHH
Q 035020 47 VEYPPEGPRPPSPEELREMAREL 69 (76)
Q Consensus 47 ~~~Ppe~~~~~~p~E~~ei~~El 69 (76)
+..||+.+.++...|..+..+.|
T Consensus 9 v~~p~~~~~~~~s~E~~a~le~L 31 (142)
T PF11712_consen 9 VYFPPPPPKPRPSPELKARLERL 31 (142)
T ss_pred EEeCCCCCCCCCCHHHHHHHHHH
Confidence 34555544444234444443333
No 30
>PF08628 Nexin_C: Sorting nexin C terminal; InterPro: IPR013937 This region is found at the C terminus of proteins belonging to the nexin family. It is found on proteins which also contain IPR001683 from INTERPRO.
Probab=22.40 E-value=1e+02 Score=19.44 Aligned_cols=21 Identities=5% Similarity=0.216 Sum_probs=14.7
Q ss_pred cCchhhhhhhcCcceeeCCCC
Q 035020 32 NNTKNIQKFMGNRSYVEYPPE 52 (76)
Q Consensus 32 ~~~d~~~~~~~~~~~~~~Ppe 52 (76)
+++++.-.++..-+..+||..
T Consensus 35 ~se~~v~~~i~~l~~~lwP~g 55 (113)
T PF08628_consen 35 TSEEQVARYIQLLRESLWPNG 55 (113)
T ss_pred cCHHHHHHHHHHHHHhhCCCC
Confidence 456666666666666799877
No 31
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=21.12 E-value=81 Score=19.59 Aligned_cols=15 Identities=33% Similarity=0.565 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHhhh
Q 035020 60 EELREMARELARNKN 74 (76)
Q Consensus 60 ~E~~ei~~Elar~r~ 74 (76)
.|+...++|++++++
T Consensus 39 ~EIeRlkAe~~kK~~ 53 (65)
T COG5509 39 AEIERLKAELAKKKA 53 (65)
T ss_pred HHHHHHHHHHHhhhc
Confidence 344444455555444
Done!