Query 030974
Match_columns 168
No_of_seqs 35 out of 37
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 07:21:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030974.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030974hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00180 NDF6 (NDH-dependent f 100.0 1.6E-99 3E-104 614.4 13.4 168 1-168 3-180 (180)
2 PF05250 UPF0193: Uncharacteri 64.5 6.3 0.00014 33.5 2.7 23 145-167 153-175 (212)
3 PF10961 DUF2763: Protein of u 57.3 32 0.0007 25.4 5.1 8 74-81 12-19 (91)
4 PRK10265 chaperone-modulator p 56.0 40 0.00086 24.6 5.3 44 121-164 37-92 (101)
5 PF02731 SKIP_SNW: SKIP/SNW do 54.0 25 0.00053 29.0 4.4 38 130-167 118-155 (158)
6 cd01279 HTH_HspR-like Helix-Tu 52.1 40 0.00087 24.1 4.8 43 122-165 32-87 (98)
7 PF12423 KIF1B: Kinesin protei 47.7 12 0.00025 24.1 1.3 11 106-116 29-40 (45)
8 PRK10559 p-hydroxybenzoic acid 46.7 23 0.0005 29.8 3.2 37 81-118 9-45 (310)
9 PLN02652 hydrolase; alpha/beta 44.1 61 0.0013 28.4 5.6 25 80-104 27-51 (395)
10 PF09803 DUF2346: Uncharacteri 43.8 22 0.00048 25.9 2.4 22 145-168 58-79 (80)
11 PRK09510 tolA cell envelope in 43.7 1E+02 0.0022 28.3 7.1 27 93-123 21-47 (387)
12 PRK00888 ftsB cell division pr 43.7 73 0.0016 23.7 5.2 42 126-167 26-72 (105)
13 KOG4503 Uncharacterized conser 41.1 9.4 0.0002 33.3 0.1 28 92-121 196-223 (230)
14 COG5085 Predicted membrane pro 41.1 9.4 0.0002 33.3 0.1 28 92-121 196-223 (230)
15 PF02413 Caudo_TAP: Caudoviral 40.7 76 0.0017 23.7 4.9 52 113-166 41-92 (130)
16 PF10348 DUF2427: Domain of un 37.0 39 0.00084 25.2 2.8 39 76-117 44-82 (105)
17 CHL00038 psbL photosystem II p 35.6 42 0.00091 22.4 2.5 19 86-104 16-34 (38)
18 cd04766 HTH_HspR Helix-Turn-He 34.8 1.3E+02 0.0028 20.9 5.1 43 122-165 32-87 (91)
19 COG2142 SdhD Succinate dehydro 34.8 42 0.00091 26.0 2.8 46 55-104 64-109 (117)
20 PF11361 DUF3159: Protein of u 34.7 28 0.00061 28.6 2.0 55 54-115 100-154 (187)
21 PF14106 DUF4279: Domain of un 34.6 25 0.00054 24.8 1.4 42 122-165 36-77 (118)
22 PF06970 RepA_N: Replication i 34.5 1.1E+02 0.0024 21.7 4.7 53 70-137 9-61 (76)
23 PF04369 Lactococcin: Lactococ 34.1 22 0.00049 25.4 1.1 15 118-132 18-39 (60)
24 COG0690 SecE Preprotein transl 33.8 53 0.0012 23.2 3.0 31 74-104 32-62 (73)
25 PF12273 RCR: Chitin synthesis 32.1 44 0.00095 24.9 2.5 18 87-104 6-23 (130)
26 COG3167 PilO Tfp pilus assembl 31.9 2.3E+02 0.0049 24.7 7.0 22 83-104 21-42 (211)
27 PF14673 DUF4459: Domain of un 31.7 22 0.00048 29.2 0.9 15 101-115 47-61 (159)
28 PF13320 DUF4091: Domain of un 31.2 63 0.0014 22.5 3.0 58 97-163 8-67 (68)
29 PF04099 Sybindin: Sybindin-li 28.6 72 0.0016 24.5 3.2 9 106-114 116-124 (142)
30 smart00046 DAGKc Diacylglycero 28.1 15 0.00032 26.8 -0.6 14 115-128 52-65 (124)
31 PF00781 DAGK_cat: Diacylglyce 28.0 7 0.00015 28.2 -2.3 15 114-128 56-70 (130)
32 PF00584 SecE: SecE/Sec61-gamm 27.9 76 0.0016 20.6 2.8 30 75-104 15-44 (57)
33 PF05078 DUF679: Protein of un 27.9 70 0.0015 26.6 3.2 40 86-134 37-85 (170)
34 PF13150 DUF3989: Protein of u 27.4 89 0.0019 23.0 3.3 25 79-103 21-45 (85)
35 PRK15327 type III secretion sy 27.1 2.1E+02 0.0046 26.4 6.4 69 86-157 142-239 (393)
36 KOG1169 Diacylglycerol kinase 26.1 25 0.00055 34.4 0.3 20 116-135 327-346 (634)
37 cd03494 SQR_TypeC_SdhD Succina 25.8 74 0.0016 23.2 2.7 40 61-104 55-94 (99)
38 PF09345 DUF1987: Domain of un 25.7 26 0.00057 26.2 0.3 60 55-132 28-88 (99)
39 PF00957 Synaptobrevin: Synapt 25.6 1.5E+02 0.0033 20.4 4.1 32 130-161 14-45 (89)
40 PF14851 FAM176: FAM176 family 25.6 1.1E+02 0.0023 25.0 3.8 31 121-152 104-135 (153)
41 PRK03100 sec-independent trans 25.2 43 0.00092 26.8 1.4 60 92-162 10-72 (136)
42 PF15409 PH_8: Pleckstrin homo 25.2 9.8 0.00021 28.2 -2.0 39 48-86 38-76 (89)
43 COG2164 Uncharacterized conser 25.2 19 0.00041 29.0 -0.6 35 54-106 50-86 (126)
44 PF13334 DUF4094: Domain of un 25.0 73 0.0016 23.7 2.5 21 86-106 3-23 (95)
45 PF06649 DUF1161: Protein of u 24.8 50 0.0011 23.1 1.5 12 146-157 2-13 (52)
46 PF13040 DUF3901: Protein of u 24.5 1.4E+02 0.0031 19.6 3.5 25 134-158 10-35 (40)
47 PHA02909 hypothetical protein; 22.4 99 0.0021 22.8 2.8 16 85-100 39-54 (72)
48 PF02222 ATP-grasp: ATP-grasp 22.1 73 0.0016 25.3 2.2 24 118-141 37-60 (172)
49 TIGR00964 secE_bact preprotein 21.8 1.2E+02 0.0027 19.9 2.9 31 74-104 13-43 (55)
50 PTZ00474 tryptophan/threonine- 20.7 2.9E+02 0.0063 24.7 5.8 42 87-129 35-76 (316)
51 PF10224 DUF2205: Predicted co 20.5 2.1E+02 0.0045 21.1 4.1 16 145-160 18-33 (80)
52 PF05739 SNARE: SNARE domain; 20.4 1.2E+02 0.0026 19.2 2.6 18 145-162 2-19 (63)
53 PRK12751 cpxP periplasmic stre 20.4 45 0.00097 27.0 0.7 6 115-120 31-36 (162)
No 1
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=100.00 E-value=1.6e-99 Score=614.44 Aligned_cols=168 Identities=66% Similarity=1.137 Sum_probs=165.0
Q ss_pred CceeeecCccccccc-ccccccccCCcccccCCCCCCCcchhhhcccc-cccccc--------chhHHHHHHHhhhcccc
Q 030974 1 MSFTITTPNVQSSLQ-STKFDTHPCSKSLKQGSRTKLFNGWQQLEGSK-KGRACL--------NWPLIAILVEHAEGQRD 70 (168)
Q Consensus 1 m~ft~~~~~~~sslq-~tK~d~~p~s~~~kq~s~s~~~~~w~~~~~~~-~~r~sl--------~~plma~~ve~~e~~rd 70 (168)
||||+++||+++|+| ++|+|++||+++|+|||+++++++|++.+++| +||+|+ ||||||+||||+|||||
T Consensus 3 ~~ft~~~~h~~ss~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~r~k~~kr~s~~kvna~P~d~pLMa~mVEhvegqRD 82 (180)
T PLN00180 3 TPFTKTKPHIPSSYAHSTKQDSGPCHGLLAQCSSGRFLSGWVNEKRSKNSKRGSLCKVNALPHDLPLMAVMVEHVEGQRD 82 (180)
T ss_pred CcccccCcchhhhhhcchhhccCccccCccccccccccCchhhcccccccccccceeeccCCcchhHHHHHHHHHhcccc
Confidence 699999999999988 99999999999999999999999999999994 489998 99999999999999999
Q ss_pred eeeecceeeccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCcccCCCCCccceeeechHHHHHHHHHHHHHHHHHH
Q 030974 71 LITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDAYREDGGDGTGHWFYEKQEEIEEAARAELWREELIE 150 (168)
Q Consensus 71 ~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y~~qe~~E~~aR~elwrEeLie 150 (168)
+||+||||||||+|||+||+||+|||||||||||||||||||||+|||+|||||||||||+||||||+||+|||||||||
T Consensus 83 ~it~KsIwHLSD~aiKnVYtfY~mFT~WG~~fFgSmKDPfYDSe~YRgdGGDGT~hW~Yd~QEd~E~sAReeL~REELiE 162 (180)
T PLN00180 83 YITHKSIWHLSDAAIKNVYTFYIMFTCWGCLFFGSMKDPFYDSEEYRGDGGDGTGHWVYERQEDIEESARAELWREELIE 162 (180)
T ss_pred eeeechhhhccHHHHhHHHHHHHHHHHHHHhheeccCCcccchHHhcccCCCCceeeEeehHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhhHHHHHhhcC
Q 030974 151 EIEQKVGGLQELEEAGRK 168 (168)
Q Consensus 151 EIEqkvgglrelEea~~k 168 (168)
|||||||||||||||++|
T Consensus 163 EIEQkVGGLRELEEa~~k 180 (180)
T PLN00180 163 EIEQKVGGLRELEEAVTK 180 (180)
T ss_pred HHHHHhhhHHHHHHhhcC
Confidence 999999999999999987
No 2
>PF05250 UPF0193: Uncharacterised protein family (UPF0193); InterPro: IPR007914 This family of proteins is functionally uncharacterised.
Probab=64.54 E-value=6.3 Score=33.46 Aligned_cols=23 Identities=43% Similarity=0.596 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhhhhHHHHHhhc
Q 030974 145 REELIEEIEQKVGGLQELEEAGR 167 (168)
Q Consensus 145 rEeLieEIEqkvgglrelEea~~ 167 (168)
-+||+.||+++..=|.++|.+|+
T Consensus 153 f~elv~EI~ER~efL~eMe~LG~ 175 (212)
T PF05250_consen 153 FEELVQEIEERREFLAEMEALGQ 175 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCC
Confidence 36899999999999999999885
No 3
>PF10961 DUF2763: Protein of unknown function (DUF2763); InterPro: IPR024491 This entry represents an eukaryotic family of selenoproteins. It includes SelK, which seems to play an important role in protecting cells from endoplasmic reticulum stress-induced apoptosis [] and SelG, which may be involved in regulating the redox state of the cell [].
Probab=57.32 E-value=32 Score=25.43 Aligned_cols=8 Identities=50% Similarity=1.020 Sum_probs=6.7
Q ss_pred ecceeecc
Q 030974 74 EKSIWHLS 81 (168)
Q Consensus 74 ~ksiwhls 81 (168)
.|+.|.||
T Consensus 12 ~rspWrls 19 (91)
T PF10961_consen 12 KRSPWRLS 19 (91)
T ss_pred CCCCccHH
Confidence 38999987
No 4
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=56.00 E-value=40 Score=24.64 Aligned_cols=44 Identities=18% Similarity=0.282 Sum_probs=30.1
Q ss_pred CCCccceeeechHHHHHHHHHHHHHH------------HHHHHHHHhhhhhHHHHH
Q 030974 121 GDGTGHWFYEKQEEIEEAARAELWRE------------ELIEEIEQKVGGLQELEE 164 (168)
Q Consensus 121 GdgtghW~Y~~qe~~E~~aR~elwrE------------eLieEIEqkvgglrelEe 164 (168)
+.|.++|.|+..+...++.=..|=|+ +|+++||+--..+|.|..
T Consensus 37 ~~~~~~~~F~~~~l~r~~~a~rL~~dl~in~~gialvl~LLd~i~~Lr~el~~L~~ 92 (101)
T PRK10265 37 EIQETTWVFDDHAAIVVQRAVRLRHELALDWPGIAVALTLLDEIAHLKQENRLLRQ 92 (101)
T ss_pred CCCcccceECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34568999988655444443444443 689999998888888764
No 5
>PF02731 SKIP_SNW: SKIP/SNW domain; InterPro: IPR004015 SKIP (SKI-interacting protein) is an essential spliceosomal component and transcriptional coregulator, which may provide regulatory coupling of transcription initiation and splicing []. SKIP was identified in a yeast 2-hybrid screen, where it was shown to interact with both the cellular and viral forms of SKI through the highly conserved region on SKIP known as the SNW domain []. SKIP is now known to interact with a number of other proteins as well. SKIP potentiates the activity of important transcription factors, such as vitamin D receptor, CBF1 (RBP-Jkappa), Smad2/3, and MyoD. It works with Ski in overcoming pRb-mediated cell cycle arrest, and it is targeted by the viral transactivators EBNA2 and E7 []. This entry represents the SNW domain.; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=54.05 E-value=25 Score=28.97 Aligned_cols=38 Identities=32% Similarity=0.376 Sum_probs=33.8
Q ss_pred echHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhhc
Q 030974 130 EKQEEIEEAARAELWREELIEEIEQKVGGLQELEEAGR 167 (168)
Q Consensus 130 ~~qe~~E~~aR~elwrEeLieEIEqkvgglrelEea~~ 167 (168)
|++-+.|...|+++=++..++|-|+|=+.||+|-+..|
T Consensus 118 d~~aReev~~R~~~~~~~a~ke~~~kEe~lr~lA~~aR 155 (158)
T PF02731_consen 118 DRKAREEVRQRAEMQKELAEKEKEEKEEKLRELAQRAR 155 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888899999999999999999999999999976554
No 6
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=52.05 E-value=40 Score=24.13 Aligned_cols=43 Identities=12% Similarity=-0.002 Sum_probs=23.8
Q ss_pred CCccceeeechHHHHHHHHHHHHHH-------------HHHHHHHHhhhhhHHHHHh
Q 030974 122 DGTGHWFYEKQEEIEEAARAELWRE-------------ELIEEIEQKVGGLQELEEA 165 (168)
Q Consensus 122 dgtghW~Y~~qe~~E~~aR~elwrE-------------eLieEIEqkvgglrelEea 165 (168)
+..|||+|+.++..... +-.-+++ ++..++++---.+++++++
T Consensus 32 ~~~g~R~Ys~~dv~~l~-~I~~L~~~~G~~l~~i~~~l~l~~~~~~l~~~~~~~~~~ 87 (98)
T cd01279 32 TNGGGRRYSNNDLELLR-QVQRLSQDEGFNLAGIKRIIELYPQVLLLQCRSCEHATE 87 (98)
T ss_pred CCCCCeeECHHHHHHHH-HHHHHHHHCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 34599999877654433 3333444 4445555555555555543
No 7
>PF12423 KIF1B: Kinesin protein 1B; InterPro: IPR022140 This domain family is found in eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF00225 from PFAM, PF00498 from PFAM. KIF1B is an anterograde motor for transport of mitochondria in axons of neuronal cells.
Probab=47.74 E-value=12 Score=24.14 Aligned_cols=11 Identities=27% Similarity=0.875 Sum_probs=8.8
Q ss_pred cCCCCCCC-CCc
Q 030974 106 TKDPYYDS-DAY 116 (168)
Q Consensus 106 tKngFYDS-D~Y 116 (168)
..|||||+ ++|
T Consensus 29 ~~DPF~e~~e~~ 40 (45)
T PF12423_consen 29 EDDPFYEPQENH 40 (45)
T ss_pred CCCCCCCCCccc
Confidence 78999999 444
No 8
>PRK10559 p-hydroxybenzoic acid efflux subunit AaeA; Provisional
Probab=46.68 E-value=23 Score=29.83 Aligned_cols=37 Identities=19% Similarity=0.347 Sum_probs=30.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCccc
Q 030974 81 SDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDAYRE 118 (168)
Q Consensus 81 sd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~YrG 118 (168)
|-.+|.+++++|.+|..|+.++|- ...|+...-.+-|
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~p~~~~~~~~~ 45 (310)
T PRK10559 9 SRTAITLVLVILAFIAIFRAWVFY-TESPWTRDARFSA 45 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh-cCCcccCceEEEe
Confidence 445899999999999999999995 8888877665555
No 9
>PLN02652 hydrolase; alpha/beta fold family protein
Probab=44.11 E-value=61 Score=28.39 Aligned_cols=25 Identities=20% Similarity=0.454 Sum_probs=23.1
Q ss_pred ccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 80 LSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 80 lsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
||-+|+|-+++++-.+|.|..|.|+
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~ 51 (395)
T PLN02652 27 LSRRALRRCLVFLHSLFLWLLLLLR 51 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5779999999999999999999996
No 10
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=43.76 E-value=22 Score=25.91 Aligned_cols=22 Identities=45% Similarity=0.720 Sum_probs=11.9
Q ss_pred HHHHHHHHHHhhhhhHHHHHhhcC
Q 030974 145 REELIEEIEQKVGGLQELEEAGRK 168 (168)
Q Consensus 145 rEeLieEIEqkvgglrelEea~~k 168 (168)
++++.+.-|++. +|++|++.+|
T Consensus 58 ~~~~~~k~~~rl--~~~~e~~~~~ 79 (80)
T PF09803_consen 58 KEELRKKREERL--LREMEEEERK 79 (80)
T ss_pred HHHHHHHHHHHH--HHHHHHHHhc
Confidence 444455555544 4567766654
No 11
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=43.73 E-value=1e+02 Score=28.32 Aligned_cols=27 Identities=15% Similarity=0.404 Sum_probs=12.1
Q ss_pred HHHHHHHHhhhcccCCCCCCCCCcccCCCCC
Q 030974 93 IMFTCWGCMFFSATKDPYYDSDAYREDGGDG 123 (168)
Q Consensus 93 tm~f~~gclFFGstKngFYDSD~YrGnGGdg 123 (168)
.=+.+++.|+||| |+.+..--|.||.|
T Consensus 21 LHvlLi~lLi~gs----~~~~~~~~~gg~~g 47 (387)
T PRK09510 21 LHIILFALLIWSS----FDENIEASGGGGGG 47 (387)
T ss_pred HHHHHHHHHHHHh----ccccCCCCCCCCCc
Confidence 3344445556663 44443333334444
No 12
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=43.70 E-value=73 Score=23.71 Aligned_cols=42 Identities=24% Similarity=0.310 Sum_probs=17.5
Q ss_pred ceeeechHHHHHHHHHHHH-----HHHHHHHHHHhhhhhHHHHHhhc
Q 030974 126 HWFYEKQEEIEEAARAELW-----REELIEEIEQKVGGLQELEEAGR 167 (168)
Q Consensus 126 hW~Y~~qe~~E~~aR~elw-----rEeLieEIEqkvgglrelEea~~ 167 (168)
-+.|..+...-+++++++= .++|-+||+.=-.+..-+|+..|
T Consensus 26 ~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR 72 (105)
T PRK00888 26 ILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERAR 72 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHH
Confidence 3445444444443333321 23444555533333344555443
No 13
>KOG4503 consensus Uncharacterized conserved membrane protein [Function unknown]
Probab=41.14 E-value=9.4 Score=33.34 Aligned_cols=28 Identities=29% Similarity=0.604 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhcccCCCCCCCCCcccCCC
Q 030974 92 YIMFTCWGCMFFSATKDPYYDSDAYREDGG 121 (168)
Q Consensus 92 ltm~f~~gclFFGstKngFYDSD~YrGnGG 121 (168)
.+++|++|.|||.-+-=|||.- |+|||-
T Consensus 196 fili~vig~lf~sn~afg~yRa--y~~n~i 223 (230)
T KOG4503|consen 196 FILIFVIGFLFFSNAAFGFYRA--YYGNGI 223 (230)
T ss_pred HHHHHHHHHHHhhhhHhHHHHH--HhcCCC
Confidence 3455667778888788889987 999984
No 14
>COG5085 Predicted membrane protein [Function unknown]
Probab=41.14 E-value=9.4 Score=33.34 Aligned_cols=28 Identities=29% Similarity=0.604 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhcccCCCCCCCCCcccCCC
Q 030974 92 YIMFTCWGCMFFSATKDPYYDSDAYREDGG 121 (168)
Q Consensus 92 ltm~f~~gclFFGstKngFYDSD~YrGnGG 121 (168)
.+++|++|.|||.-+-=|||.- |+|||-
T Consensus 196 fili~vig~lf~sn~afg~yRa--y~~n~i 223 (230)
T COG5085 196 FILIFVIGFLFFSNAAFGFYRA--YYGNGI 223 (230)
T ss_pred HHHHHHHHHHHhhhhHhHHHHH--HhcCCC
Confidence 3455667778888788889987 999984
No 15
>PF02413 Caudo_TAP: Caudovirales tail fibre assembly protein; InterPro: IPR003458 This family contains Bacteriophage T4 gp38 and related bacterial prophage and phage proteins. Gene 38 of phage T4 codes for a protein containing 183 amino acid residues with molecular weight of 22.3 kDa. Together with genes 36 and 37, whose products are structural proteins of the fibre distal part, gene 38 forms one transcription unit. Gp38, is a chaperone, which is required for assembly of the distal part of the long fibres and which is absent from the mature phage particle. In the absence of gp38 gp37, which is a component of the distal part of the long tail fibre, fails to oligomerise. The carboxy-terminal region of gp37 forms the tip of the distal fibre that interacts with the cell receptors. Functionally the role of gp38 can be replaced by pTfa of Bacteriophage lambda [, , ]. The function of many of the other members of this family remain to be elucidated.
Probab=40.74 E-value=76 Score=23.73 Aligned_cols=52 Identities=23% Similarity=0.366 Sum_probs=34.6
Q ss_pred CCCcccCCCCCccceeeechHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhh
Q 030974 113 SDAYREDGGDGTGHWFYEKQEEIEEAARAELWREELIEEIEQKVGGLQELEEAG 166 (168)
Q Consensus 113 SD~YrGnGGdgtghW~Y~~qe~~E~~aR~elwrEeLieEIEqkvgglrelEea~ 166 (168)
+-.|+..+|+|...|+=..+++.-+.|+. =|..||.|..+++..|+..-+.|
T Consensus 41 ~g~~~~~~g~~~p~~~~~~~~~~~~~A~~--~k~~ll~~A~~~I~~lqda~~lg 92 (130)
T PF02413_consen 41 PGKWDFWDGKGWPRWVDAPKEELIAQAEA--EKQRLLAEASEAIAPLQDAVDLG 92 (130)
T ss_pred CCCEEEECCccccccchhhHHHHHHHHHH--HHHHHHHHHHHHHHHhHHHHHhc
Confidence 34667777777777754444444444444 47899999999988887655444
No 16
>PF10348 DUF2427: Domain of unknown function (DUF2427); InterPro: IPR018825 This entry represents the N-terminal region of a family of proteins conserved in fungi. Several of these proteins are annotated as being Ftp1 but this could not be confirmed. Their function is not known.
Probab=37.04 E-value=39 Score=25.19 Aligned_cols=39 Identities=28% Similarity=0.445 Sum_probs=28.6
Q ss_pred ceeeccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCcc
Q 030974 76 SIWHLSDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDAYR 117 (168)
Q Consensus 76 siwhlsd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~Yr 117 (168)
|-||+.-+.+-.++++..+++. ..|-|++.| ||....|+
T Consensus 44 sr~~~~~q~~~~~l~~~g~~~g--~~~~~~~p~-lyp~n~H~ 82 (105)
T PF10348_consen 44 SRWHLPVQTVFLVLMILGLFLG--SVYNGSTPD-LYPNNAHG 82 (105)
T ss_pred chHHHHHHHHHHHHHHHHHHHH--HHHhcCCCC-CCCCCHHH
Confidence 5699999888888877776654 468887766 88766554
No 17
>CHL00038 psbL photosystem II protein L
Probab=35.59 E-value=42 Score=22.39 Aligned_cols=19 Identities=11% Similarity=0.296 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 030974 86 KNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 86 K~Vl~~ltm~f~~gclFFG 104 (168)
..+|..+.++|+.+++|..
T Consensus 16 TSLy~GLLlifvl~vlfss 34 (38)
T CHL00038 16 TSLYWGLLLIFVLAVLFSN 34 (38)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 3578889999999998864
No 18
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=34.83 E-value=1.3e+02 Score=20.88 Aligned_cols=43 Identities=23% Similarity=0.267 Sum_probs=22.7
Q ss_pred CCccceeeechHHHHHHHHHHHHHH-------------HHHHHHHHhhhhhHHHHHh
Q 030974 122 DGTGHWFYEKQEEIEEAARAELWRE-------------ELIEEIEQKVGGLQELEEA 165 (168)
Q Consensus 122 dgtghW~Y~~qe~~E~~aR~elwrE-------------eLieEIEqkvgglrelEea 165 (168)
+..|++.|+.++..-. ..---+++ .|.++||+=-..+.+|.++
T Consensus 32 ~~~g~R~y~~~dv~~l-~~i~~L~~d~g~~l~~i~~~l~l~~~~~~l~~~l~~l~~~ 87 (91)
T cd04766 32 TDGGTRRYSERDIERL-RRIQRLTQELGVNLAGVKRILELEEELAELRAELDELRAR 87 (91)
T ss_pred CCCCCeeECHHHHHHH-HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4448999987654433 33333333 3555555555555555443
No 19
>COG2142 SdhD Succinate dehydrogenase, hydrophobic anchor subunit [Energy production and conversion]
Probab=34.77 E-value=42 Score=26.03 Aligned_cols=46 Identities=13% Similarity=0.166 Sum_probs=36.0
Q ss_pred hhHHHHHHHhhhcccceeeecceeeccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 55 WPLIAILVEHAEGQRDLITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 55 ~plma~~ve~~e~~rd~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
+-|.+.++--.-|.|++|+|-+. ..+.|+.+..+.+++++.|.++|
T Consensus 64 L~l~~~l~H~~~Glr~Ii~DYi~----~~~~r~~l~~~~~~~~v~~~~~g 109 (117)
T COG2142 64 LLLVAALIHAWNGLRVIIEDYIK----PEKLRLALQILLVLALVLTGVYG 109 (117)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHh----hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667778899999988653 45678888889999999998887
No 20
>PF11361 DUF3159: Protein of unknown function (DUF3159); InterPro: IPR016566 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins (with several transmembrane segments).
Probab=34.73 E-value=28 Score=28.64 Aligned_cols=55 Identities=22% Similarity=0.422 Sum_probs=37.8
Q ss_pred chhHHHHHHHhhhcccceeeecceeeccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCC
Q 030974 54 NWPLIAILVEHAEGQRDLITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDA 115 (168)
Q Consensus 54 ~~plma~~ve~~e~~rd~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~ 115 (168)
.|||+..+++-+.++ ..-|+ .|..++-.|...|.+....|+.=-.-+.|.|.+|+
T Consensus 100 r~PlvG~i~~~~~g~------~~~Wr-~d~~~~r~y~~~T~~w~~~f~~r~~Vq~pLy~a~~ 154 (187)
T PF11361_consen 100 RWPLVGVIVGLFRGE------PTAWR-RDPRLRRAYRRATWVWAAVFALRLAVQLPLYLADS 154 (187)
T ss_pred cCChHHHHHHHHcCC------Ccccc-cChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 799999999987765 44798 88888888888887644333321114556666553
No 21
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=34.56 E-value=25 Score=24.78 Aligned_cols=42 Identities=26% Similarity=0.391 Sum_probs=32.3
Q ss_pred CCccceeeechHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHh
Q 030974 122 DGTGHWFYEKQEEIEEAARAELWREELIEEIEQKVGGLQELEEA 165 (168)
Q Consensus 122 dgtghW~Y~~qe~~E~~aR~elwrEeLieEIEqkvgglrelEea 165 (168)
--++.|.|..+........+.| ++|++.++.+...+++|-+.
T Consensus 36 ~~~~~W~~~~~~~~~~dl~~~l--~~ll~~L~~~~~~i~~l~~~ 77 (118)
T PF14106_consen 36 RKESSWSLSSELEESSDLEDHL--EELLDRLEPKREIIKELKEK 77 (118)
T ss_pred eeeceEEEecCCCCccCHHHHH--HHHHHHHcccHHHHHHHHHh
Confidence 4477999998877776655555 57889999999999988543
No 22
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=34.46 E-value=1.1e+02 Score=21.74 Aligned_cols=53 Identities=21% Similarity=0.239 Sum_probs=36.2
Q ss_pred ceeeecceeeccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCcccCCCCCccceeeechHHHHH
Q 030974 70 DLITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDAYREDGGDGTGHWFYEKQEEIEE 137 (168)
Q Consensus 70 d~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y~~qe~~E~ 137 (168)
.++++...-.||.+| |.+|.++.==+..+ .||+|+|. ||...=+|..+|.+|.
T Consensus 9 ~L~~~~~y~~Ls~~A-k~lY~ll~dR~~lS------~kn~wiDe--------~G~vYi~~s~eel~~~ 61 (76)
T PF06970_consen 9 VLFEDPKYKKLSNDA-KILYSLLLDRLRLS------LKNGWIDE--------NGNVYIIFSIEELMEL 61 (76)
T ss_pred HHhCCcccccCCHHH-HHHHHHHHHHHHhh------hhcCcCCC--------CCCEEEEeeHHHHHHH
Confidence 345566667788877 55666655444443 49999996 4678888888777664
No 23
>PF04369 Lactococcin: Lactococcin-like family; InterPro: IPR007464 Bacteriocins are produced by bacteria to inhibit the growth of similar or closely related bacterial strains. The class II bacteriocins are small heat-stable proteins for which disulphide bonds are the only modification to the peptide. Lactococcin A and B are class-IId bacteriocins (one-peptide non-pediocin-like bacteriocin) [, ].; GO: 0042742 defense response to bacterium, 0005576 extracellular region
Probab=34.11 E-value=22 Score=25.43 Aligned_cols=15 Identities=47% Similarity=1.438 Sum_probs=12.6
Q ss_pred cCCC-------CCccceeeech
Q 030974 118 EDGG-------DGTGHWFYEKQ 132 (168)
Q Consensus 118 GnGG-------dgtghW~Y~~q 132 (168)
=||| .|.|+|+||..
T Consensus 18 i~GG~l~~iqs~g~g~w~~d~~ 39 (60)
T PF04369_consen 18 INGGGLPYIQSNGPGHWYYDTN 39 (60)
T ss_pred ccCCcceeeeecCcceeeeecc
Confidence 4788 99999999864
No 24
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=33.76 E-value=53 Score=23.16 Aligned_cols=31 Identities=10% Similarity=0.493 Sum_probs=27.9
Q ss_pred ecceeeccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 74 EKSIWHLSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 74 ~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
.|.+|--..+.++..++.+.+++..+.++|+
T Consensus 32 ~KV~WPsrke~~~~t~~Vl~~v~~~s~~~~~ 62 (73)
T COG0690 32 KKVVWPTRKELIRSTLIVLVVVAFFSLFLYG 62 (73)
T ss_pred HhccCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999888888877
No 25
>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=32.05 E-value=44 Score=24.94 Aligned_cols=18 Identities=6% Similarity=0.115 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHhhhc
Q 030974 87 NVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 87 ~Vl~~ltm~f~~gclFFG 104 (168)
+|+|+++++++++|+.+.
T Consensus 6 ~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 6 AIIIVAILLFLFLFYCHN 23 (130)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555555544
No 26
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=31.90 E-value=2.3e+02 Score=24.74 Aligned_cols=22 Identities=14% Similarity=0.107 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 030974 83 QAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 83 ~aIK~Vl~~ltm~f~~gclFFG 104 (168)
.+.|+|..+|+++++++.-+|+
T Consensus 21 l~~rlv~~lL~~~~V~~lGy~f 42 (211)
T COG3167 21 LAPRLVFCLLAVAAVLGLGYAF 42 (211)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3789999999999999998887
No 27
>PF14673 DUF4459: Domain of unknown function (DUF4459)
Probab=31.67 E-value=22 Score=29.18 Aligned_cols=15 Identities=33% Similarity=1.012 Sum_probs=13.4
Q ss_pred hhhcccCCCCCCCCC
Q 030974 101 MFFSATKDPYYDSDA 115 (168)
Q Consensus 101 lFFGstKngFYDSD~ 115 (168)
-|||..+.|||-|+|
T Consensus 47 tffgdsrepfygsen 61 (159)
T PF14673_consen 47 TFFGDSREPFYGSEN 61 (159)
T ss_pred eEecCcCCcccCCcC
Confidence 489999999999976
No 28
>PF13320 DUF4091: Domain of unknown function (DUF4091)
Probab=31.20 E-value=63 Score=22.52 Aligned_cols=58 Identities=29% Similarity=0.507 Sum_probs=38.8
Q ss_pred HHHHhhhcccCCCCCCCCCcccCCCCCccceeeechH--HHHHHHHHHHHHHHHHHHHHHhhhhhHHHH
Q 030974 97 CWGCMFFSATKDPYYDSDAYREDGGDGTGHWFYEKQE--EIEEAARAELWREELIEEIEQKVGGLQELE 163 (168)
Q Consensus 97 ~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y~~qe--~~E~~aR~elwrEeLieEIEqkvgglrelE 163 (168)
=|+..++ .+|||-|++ |++ -+.|-+.=+|--.+ ....+-|-|.+|+-+ |-++-|+.||
T Consensus 8 ~W~~~~w--~~dP~~d~~-~~~-~~~GD~~lvYPg~~~~~p~~SiRle~lr~G~-----qD~e~l~~l~ 67 (68)
T PF13320_consen 8 RWAYNFW--NEDPWEDTR-FRG-FPAGDGFLVYPGEDTGGPVSSIRLEVLREGI-----QDYEYLRLLE 67 (68)
T ss_pred Eeccccc--ccCcccccC-cCc-CCCCCeEEEecCCCCCCcccCHHHHHHHHHH-----HHHHHHHHHh
Confidence 3666655 458887653 333 46777788998777 777899999988764 3344455554
No 29
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses. Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.
Probab=28.60 E-value=72 Score=24.48 Aligned_cols=9 Identities=33% Similarity=0.999 Sum_probs=5.9
Q ss_pred cCCCCCCCC
Q 030974 106 TKDPYYDSD 114 (168)
Q Consensus 106 tKngFYDSD 114 (168)
+|||||..|
T Consensus 116 ~KNPfy~~~ 124 (142)
T PF04099_consen 116 VKNPFYSLE 124 (142)
T ss_dssp HS-TTS-TT
T ss_pred hhCCCCCCC
Confidence 799999974
No 30
>smart00046 DAGKc Diacylglycerol kinase catalytic domain (presumed). Diacylglycerol (DAG) is a second messenger that acts as a protein kinase C activator. DAG can be produced from the hydrolysis of phosphatidylinositol 4,5-bisphosphate (PIP2) by a phosphoinositide-specific phospholipase C and by the degradation of phosphatidylcholine (PC) by a phospholipase C or the concerted actions of phospholipase D and phosphatidate phosphohydrolase. This domain is presumed to be the catalytic domain. Bacterial homologues areknown.
Probab=28.05 E-value=15 Score=26.85 Aligned_cols=14 Identities=43% Similarity=0.657 Sum_probs=11.0
Q ss_pred CcccCCCCCcccee
Q 030974 115 AYREDGGDGTGHWF 128 (168)
Q Consensus 115 ~YrGnGGdgtghW~ 128 (168)
.----|||||.|.+
T Consensus 52 ~vvv~GGDGTi~~v 65 (124)
T smart00046 52 RVLVCGGDGTVGWV 65 (124)
T ss_pred EEEEEccccHHHHH
Confidence 44567999999875
No 31
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=27.97 E-value=7 Score=28.15 Aligned_cols=15 Identities=40% Similarity=0.377 Sum_probs=11.0
Q ss_pred CCcccCCCCCcccee
Q 030974 114 DAYREDGGDGTGHWF 128 (168)
Q Consensus 114 D~YrGnGGdgtghW~ 128 (168)
|.----|||||-|++
T Consensus 56 ~~ivv~GGDGTl~~v 70 (130)
T PF00781_consen 56 DVIVVVGGDGTLNEV 70 (130)
T ss_dssp SEEEEEESHHHHHHH
T ss_pred cEEEEEcCccHHHHH
Confidence 444557999998875
No 32
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=27.87 E-value=76 Score=20.57 Aligned_cols=30 Identities=20% Similarity=0.532 Sum_probs=26.1
Q ss_pred cceeeccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 75 KSIWHLSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 75 ksiwhlsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
|-.|.-.++.++...+.+.+..+.|.++|+
T Consensus 15 kv~WP~~~e~~~~t~~Vl~~~~i~~~~~~~ 44 (57)
T PF00584_consen 15 KVTWPSRKELLKSTIIVLVFVIIFGLFFFL 44 (57)
T ss_dssp HHHCCCTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667888899999999999998888888876
No 33
>PF05078 DUF679: Protein of unknown function (DUF679); InterPro: IPR007770 This family contains uncharacterised plant proteins of unknown function.
Probab=27.85 E-value=70 Score=26.65 Aligned_cols=40 Identities=25% Similarity=0.609 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHhhhcccCCCCCCCCCcccCCCCCc---------cceeeechHH
Q 030974 86 KNVYLFYIMFTCWGCMFFSATKDPYYDSDAYREDGGDGT---------GHWFYEKQEE 134 (168)
Q Consensus 86 K~Vl~~ltm~f~~gclFFGstKngFYDSD~YrGnGGdgt---------ghW~Y~~qe~ 134 (168)
|.+-.++..+...+|.||. - +|.|+| .||. |-|+++.+.+
T Consensus 37 r~lt~~Ll~lca~sC~f~s-F------TDS~~~--~dGkvyYG~aT~~Gl~~f~~~~~ 85 (170)
T PF05078_consen 37 RWLTAALLALCAASCFFFS-F------TDSFRG--SDGKVYYGFATPRGLWVFNYPGP 85 (170)
T ss_pred HHHHHHHHHHHHHHHHHee-e------cceeEC--CCCCEEEEEEEcccceecCCCCc
Confidence 4444555566677777776 2 455665 3664 4577775443
No 34
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=27.40 E-value=89 Score=22.97 Aligned_cols=25 Identities=20% Similarity=0.362 Sum_probs=17.6
Q ss_pred eccHHHHHHHHHHHHHHHHHHHhhh
Q 030974 79 HLSDQAIKNVYLFYIMFTCWGCMFF 103 (168)
Q Consensus 79 hlsd~aIK~Vl~~ltm~f~~gclFF 103 (168)
.||.++=+.|.+.+..+|..+|+|+
T Consensus 21 ~Lsp~~R~~vvl~ml~~fa~l~ly~ 45 (85)
T PF13150_consen 21 RLSPKQRLRVVLVMLVLFAALCLYM 45 (85)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677776677777777777777764
No 35
>PRK15327 type III secretion system needle complex protein PrgH; Provisional
Probab=27.15 E-value=2.1e+02 Score=26.41 Aligned_cols=69 Identities=14% Similarity=0.037 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHhhhcccCCCCCCCCC---------ccc--------CCCCCccceeeechHHHHHHHHHHHHHHH-
Q 030974 86 KNVYLFYIMFTCWGCMFFSATKDPYYDSDA---------YRE--------DGGDGTGHWFYEKQEEIEEAARAELWREE- 147 (168)
Q Consensus 86 K~Vl~~ltm~f~~gclFFGstKngFYDSD~---------YrG--------nGGdgtghW~Y~~qe~~E~~aR~elwrEe- 147 (168)
..+++.+++++++|.+|.+ ..-|+.|+. -.| .|+||+ -.+--+.++..+=+|+.|.|+.
T Consensus 142 ~~~~~~l~~~~~~~l~~~~--~~~~~ns~~~~v~tL~~~L~g~~~p~~Il~grD~~-iyVLa~~qrd~~W~~Q~L~k~~~ 218 (393)
T PRK15327 142 NGIVAALAGFFIVGIGTVG--TLWILNSPQRQAAELDSLLGQEKERFQVLPGRDKM-LYVAAQNERDTLWARQSLARGDY 218 (393)
T ss_pred hhHHHHHHHHHHHHHHHHh--eeeecCchHHHHHHHHHHhcCCCCceEEEeCCCCc-EEEEEccccHhHHHHHHHhhCCC
Confidence 3566667777777766544 555666662 112 467884 2333444555556788888843
Q ss_pred -----------HHHHHHHhhh
Q 030974 148 -----------LIEEIEQKVG 157 (168)
Q Consensus 148 -----------LieEIEqkvg 157 (168)
+.+|||+++.
T Consensus 219 ~~~v~v~~~~~~~~~ie~~L~ 239 (393)
T PRK15327 219 DKNARVINENEENKRVSTWLD 239 (393)
T ss_pred cCceEEechHHHHHHHHHHHH
Confidence 5667777654
No 36
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=26.08 E-value=25 Score=34.37 Aligned_cols=20 Identities=30% Similarity=0.498 Sum_probs=16.8
Q ss_pred cccCCCCCccceeeechHHH
Q 030974 116 YREDGGDGTGHWFYEKQEEI 135 (168)
Q Consensus 116 YrGnGGdgtghW~Y~~qe~~ 135 (168)
-==-|||||.-|+-+-++++
T Consensus 327 iLVcGGDGTvGWVL~~i~~~ 346 (634)
T KOG1169|consen 327 ILVCGGDGTVGWVLGCIDKL 346 (634)
T ss_pred EEEecCCCcchhhhhhHHHh
Confidence 34569999999999988876
No 37
>cd03494 SQR_TypeC_SdhD Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the high potential quinine, ubiquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type C SQRs because they contain two transmembrane subunits and one heme group. SdhD and SdhC are the two transmembrane proteins of bacterial SQRs. They contain heme and quinone binding sites. The two-electron oxidation of succinate in the flavoprotein active site is coupled to the two-electron reduction of quinone in the membrane anchor subunits via electron transport through FAD an
Probab=25.78 E-value=74 Score=23.21 Aligned_cols=40 Identities=15% Similarity=0.374 Sum_probs=31.3
Q ss_pred HHHhhhcccceeeecceeeccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 61 LVEHAEGQRDLITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 61 ~ve~~e~~rd~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
+.--.-|.|+++.|= ......|..+.++..+.-.+|+++|
T Consensus 55 ~~H~~~Glr~vi~DY----v~~~~lr~~l~~~~~~~l~~~~~~~ 94 (99)
T cd03494 55 LLHAWIGLWDILTDY----VKPAGLRLLLQVLIILVLFGYLIWG 94 (99)
T ss_pred HHHHHHHHHHHHHHH----cCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456888887765 4467889999999999999999988
No 38
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=25.73 E-value=26 Score=26.16 Aligned_cols=60 Identities=13% Similarity=0.326 Sum_probs=36.4
Q ss_pred hhHHHHHHHhhhc-ccceeeecceeeccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCcccCCCCCccceeeech
Q 030974 55 WPLIAILVEHAEG-QRDLITEKSIWHLSDQAIKNVYLFYIMFTCWGCMFFSATKDPYYDSDAYREDGGDGTGHWFYEKQ 132 (168)
Q Consensus 55 ~plma~~ve~~e~-~rd~i~~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y~~q 132 (168)
-|++.-|-+.+.. ++-+..+=..=-++-...|.++-++-++ ++|...|+.=+.+|+|+..
T Consensus 28 ~Pi~~wl~~Yl~~~~~~i~~~~~L~YfNTSSsk~l~~i~~~L------------------e~~~~~g~~V~v~Wyyd~d 88 (99)
T PF09345_consen 28 QPILDWLEAYLAEPNKPITFNFKLSYFNTSSSKALMDIFDLL------------------EDAAQKGGKVTVNWYYDED 88 (99)
T ss_pred HHHHHHHHHHHhCCCCcEEEEEEEEEEecHhHHHHHHHHHHH------------------HHHHhcCCcEEEEEEECCC
Confidence 3555555555554 3333333333344455556655555544 5678899999999999843
No 39
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=25.64 E-value=1.5e+02 Score=20.38 Aligned_cols=32 Identities=31% Similarity=0.360 Sum_probs=25.6
Q ss_pred echHHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Q 030974 130 EKQEEIEEAARAELWREELIEEIEQKVGGLQE 161 (168)
Q Consensus 130 ~~qe~~E~~aR~elwrEeLieEIEqkvgglre 161 (168)
|.++.|...-..-+=|.|-++++++|.+.|.+
T Consensus 14 ~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~ 45 (89)
T PF00957_consen 14 EVKNIMRENIDKLLERGEKLEELEDKTEELSD 45 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCchHHHHHHHHHHHHH
Confidence 44566677777778899999999999988864
No 40
>PF14851 FAM176: FAM176 family
Probab=25.64 E-value=1.1e+02 Score=24.98 Aligned_cols=31 Identities=42% Similarity=0.467 Sum_probs=21.2
Q ss_pred CCCc-cceeeechHHHHHHHHHHHHHHHHHHHH
Q 030974 121 GDGT-GHWFYEKQEEIEEAARAELWREELIEEI 152 (168)
Q Consensus 121 Gdgt-ghW~Y~~qe~~E~~aR~elwrEeLieEI 152 (168)
.+|| ..=+|...|..|.+.|-| .||.+|.||
T Consensus 104 ~~~~ls~nvf~sae~~e~A~rlE-eRe~iirEI 135 (153)
T PF14851_consen 104 FDRTLSVNVFTSAEELERAQRLE-ERERIIREI 135 (153)
T ss_pred CCCCCccCCcccHHHHHHHHHHH-HHHHHHHHH
Confidence 3455 334666667777766666 688999888
No 41
>PRK03100 sec-independent translocase; Provisional
Probab=25.24 E-value=43 Score=26.82 Aligned_cols=60 Identities=22% Similarity=0.365 Sum_probs=31.6
Q ss_pred HHHHHHHHHhhhcccCCCCCCCCCcccCCCCCccceeeechHHHHHHHHHHHHHHHH---HHHHHHhhhhhHHH
Q 030974 92 YIMFTCWGCMFFSATKDPYYDSDAYREDGGDGTGHWFYEKQEEIEEAARAELWREEL---IEEIEQKVGGLQEL 162 (168)
Q Consensus 92 ltm~f~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y~~qe~~E~~aR~elwrEeL---ieEIEqkvgglrel 162 (168)
+.++.+++.++||.-|=|=+= -..|.|+..-.+ +-..+++++ +||| ++|+.+.+..++++
T Consensus 10 llvI~vVaLvv~GPkrLP~~~---------r~lG~~vr~~R~-~~~~~~~~~-~~elg~e~~dlrk~l~el~~l 72 (136)
T PRK03100 10 MLVLVVAGLVILGPERLPGAI---------RWTARALRQARD-YASGATSQL-REELGPEFDDLRKPLGELQKL 72 (136)
T ss_pred HHHHHHHHHhhcCchHHHHHH---------HHHHHHHHHHHH-HHHHHHHHH-HHHHhhhHHHHHHHHHHHHHH
Confidence 455667788899944433221 245667765543 222334333 4444 45565555555544
No 42
>PF15409 PH_8: Pleckstrin homology domain
Probab=25.19 E-value=9.8 Score=28.19 Aligned_cols=39 Identities=23% Similarity=0.400 Sum_probs=25.6
Q ss_pred ccccccchhHHHHHHHhhhcccceeeecceeeccHHHHH
Q 030974 48 KGRACLNWPLIAILVEHAEGQRDLITEKSIWHLSDQAIK 86 (168)
Q Consensus 48 ~~r~sl~~plma~~ve~~e~~rd~i~~ksiwhlsd~aIK 86 (168)
+-|+|+++++-++-+.-=...=|+-+.-.||||--..-.
T Consensus 38 ~~rGsi~v~~a~is~~~~~~~I~idsg~~i~hLKa~s~~ 76 (89)
T PF15409_consen 38 KLRGSIDVSLAVISANKKSRRIDIDSGDEIWHLKAKSQE 76 (89)
T ss_pred eeEeEEEccceEEEecCCCCEEEEEcCCeEEEEEcCCHH
Confidence 579999999886655432223356677889999543333
No 43
>COG2164 Uncharacterized conserved protein [Function unknown]
Probab=25.16 E-value=19 Score=29.00 Aligned_cols=35 Identities=29% Similarity=0.529 Sum_probs=23.6
Q ss_pred chhHHHHHHHhhhcccceeee--cceeeccHHHHHHHHHHHHHHHHHHHhhhccc
Q 030974 54 NWPLIAILVEHAEGQRDLITE--KSIWHLSDQAIKNVYLFYIMFTCWGCMFFSAT 106 (168)
Q Consensus 54 ~~plma~~ve~~e~~rd~i~~--ksiwhlsd~aIK~Vl~~ltm~f~~gclFFGst 106 (168)
+.|+ -|+.+|+.+|.+.- -+.|--+- -.|+|||+|
T Consensus 50 ~tpv---~v~k~ENp~dvve~GDv~YWpPGk---------------AlClFFGkT 86 (126)
T COG2164 50 DTPV---DVDKYENPSDVVEPGDVSYWPPGK---------------ALCLFFGKT 86 (126)
T ss_pred eccc---chhhccCcccccCcccccccCCCc---------------EEEEEecCC
Confidence 5554 47889999998753 34554432 259999966
No 44
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=24.97 E-value=73 Score=23.70 Aligned_cols=21 Identities=33% Similarity=0.441 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 030974 86 KNVYLFYIMFTCWGCMFFSAT 106 (168)
Q Consensus 86 K~Vl~~ltm~f~~gclFFGst 106 (168)
|.++++++.-|+.|++|=|-|
T Consensus 3 kw~l~Lc~~SF~~G~lft~R~ 23 (95)
T PF13334_consen 3 KWVLLLCIASFCAGMLFTNRM 23 (95)
T ss_pred hHHHHHHHHHHHHHHHHhccc
Confidence 568888889999999887744
No 45
>PF06649 DUF1161: Protein of unknown function (DUF1161); InterPro: IPR010595 This family consists of several short, hypothetical bacterial proteins of unknown function.
Probab=24.79 E-value=50 Score=23.15 Aligned_cols=12 Identities=67% Similarity=0.689 Sum_probs=10.4
Q ss_pred HHHHHHHHHhhh
Q 030974 146 EELIEEIEQKVG 157 (168)
Q Consensus 146 EeLieEIEqkvg 157 (168)
|+|-+||+||+-
T Consensus 2 E~lk~eI~~KI~ 13 (52)
T PF06649_consen 2 EELKAEIEQKII 13 (52)
T ss_pred hHHHHHHHHHHH
Confidence 789999999974
No 46
>PF13040 DUF3901: Protein of unknown function (DUF3901)
Probab=24.46 E-value=1.4e+02 Score=19.64 Aligned_cols=25 Identities=28% Similarity=0.517 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHhhhh
Q 030974 134 EIEEAARAELWR-EELIEEIEQKVGG 158 (168)
Q Consensus 134 ~~E~~aR~elwr-EeLieEIEqkvgg 158 (168)
+.=++.+.+|.. .+.|+.||.|+..
T Consensus 10 eLV~eNK~ell~d~~~me~Ieerie~ 35 (40)
T PF13040_consen 10 ELVRENKQELLNDKEAMEKIEERIEE 35 (40)
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHHH
Confidence 334556666665 6789999998753
No 47
>PHA02909 hypothetical protein; Provisional
Probab=22.43 E-value=99 Score=22.76 Aligned_cols=16 Identities=44% Similarity=0.698 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 030974 85 IKNVYLFYIMFTCWGC 100 (168)
Q Consensus 85 IK~Vl~~ltm~f~~gc 100 (168)
|-.|.++++||++++|
T Consensus 39 ilfviiflsmftilac 54 (72)
T PHA02909 39 ILFVIIFLSMFTILAC 54 (72)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4456667777777766
No 48
>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis. This family does not contain all known ATP-grasp domain members. All the enzymes of this family possess ATP-dependent carboxylate-amine ligase activity, and their catalytic mechanisms are likely to include acylphosphate intermediates.; PDB: 3K5H_C 3K5I_C 3AX6_A 3Q2O_B 3QFF_B 3R5H_A 3ORQ_B 3ORR_B 4E4T_B 2Z04_A ....
Probab=22.08 E-value=73 Score=25.34 Aligned_cols=24 Identities=29% Similarity=0.580 Sum_probs=19.7
Q ss_pred cCCCCCccceeeechHHHHHHHHH
Q 030974 118 EDGGDGTGHWFYEKQEEIEEAARA 141 (168)
Q Consensus 118 GnGGdgtghW~Y~~qe~~E~~aR~ 141 (168)
-.|.||.|+|+-..++|++.+.+.
T Consensus 37 ~~GYDGkGq~~i~~~~dl~~a~~~ 60 (172)
T PF02222_consen 37 RGGYDGKGQFVIRSEEDLEKAWQE 60 (172)
T ss_dssp SSSCTTTTEEEESSGGGHHHHHHH
T ss_pred CcCcCCCccEEECCHHHHHHHHHh
Confidence 357899999999999998876654
No 49
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=21.80 E-value=1.2e+02 Score=19.85 Aligned_cols=31 Identities=13% Similarity=0.414 Sum_probs=25.7
Q ss_pred ecceeeccHHHHHHHHHHHHHHHHHHHhhhc
Q 030974 74 EKSIWHLSDQAIKNVYLFYIMFTCWGCMFFS 104 (168)
Q Consensus 74 ~ksiwhlsd~aIK~Vl~~ltm~f~~gclFFG 104 (168)
.|-+|.=.++..+...+.+++....+.++++
T Consensus 13 kkV~WPt~~e~~~~t~~Vi~~~~~~~~~~~~ 43 (55)
T TIGR00964 13 KKVVWPSRKELITYTIVVIVFVIFFSLFLFG 43 (55)
T ss_pred hcCcCcCHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4778998899999988888888888877776
No 50
>PTZ00474 tryptophan/threonine-rich antigen superfamily; Provisional
Probab=20.70 E-value=2.9e+02 Score=24.67 Aligned_cols=42 Identities=14% Similarity=0.191 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHhhhcccCCCCCCCCCcccCCCCCccceee
Q 030974 87 NVYLFYIMFTCWGCMFFSATKDPYYDSDAYREDGGDGTGHWFY 129 (168)
Q Consensus 87 ~Vl~~ltm~f~~gclFFGstKngFYDSD~YrGnGGdgtghW~Y 129 (168)
.|+.+++++|.++|.+|=++ -+.=..+....+..|.+.-=.|
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 76 (316)
T PTZ00474 35 TLSRLTILIFALSCAFFVNT-ASGASTNRPNKNGFVSPNLIGF 76 (316)
T ss_pred HHHHHHHHHHHHHHHHHhcc-cccccccccccCcccccccccc
Confidence 34566677777777776645 2222335556677777665544
No 51
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=20.46 E-value=2.1e+02 Score=21.08 Aligned_cols=16 Identities=44% Similarity=0.599 Sum_probs=7.4
Q ss_pred HHHHHHHHHHhhhhhH
Q 030974 145 REELIEEIEQKVGGLQ 160 (168)
Q Consensus 145 rEeLieEIEqkvgglr 160 (168)
+++||+||-+=-..|+
T Consensus 18 k~~Li~ei~~LQ~sL~ 33 (80)
T PF10224_consen 18 KEELIQEILELQDSLE 33 (80)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555555544333333
No 52
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=20.37 E-value=1.2e+02 Score=19.21 Aligned_cols=18 Identities=33% Similarity=0.700 Sum_probs=11.4
Q ss_pred HHHHHHHHHHhhhhhHHH
Q 030974 145 REELIEEIEQKVGGLQEL 162 (168)
Q Consensus 145 rEeLieEIEqkvgglrel 162 (168)
|++-|++|++.|..|+++
T Consensus 2 ~d~~l~~l~~~i~~l~~~ 19 (63)
T PF05739_consen 2 RDEELDELEQSIQELKQM 19 (63)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 455566777777666654
No 53
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=20.37 E-value=45 Score=26.97 Aligned_cols=6 Identities=50% Similarity=1.077 Sum_probs=2.7
Q ss_pred CcccCC
Q 030974 115 AYREDG 120 (168)
Q Consensus 115 ~YrGnG 120 (168)
+|+|+|
T Consensus 31 ~~~~~~ 36 (162)
T PRK12751 31 GYHGDG 36 (162)
T ss_pred CCCccc
Confidence 355543
Done!