Query 029864
Match_columns 186
No_of_seqs 127 out of 882
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 04:52:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029864.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029864hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0859 Synaptobrevin/VAMP-lik 100.0 1.4E-54 3E-59 318.7 15.9 175 4-181 1-176 (217)
2 KOG0861 SNARE protein YKT6, sy 100.0 7E-40 1.5E-44 236.6 17.6 177 4-185 1-194 (198)
3 KOG0862 Synaptobrevin/VAMP-lik 100.0 5.6E-34 1.2E-38 213.8 17.4 173 5-180 1-184 (216)
4 COG5143 SNC1 Synaptobrevin/VAM 99.9 3E-25 6.5E-30 164.6 15.3 176 5-185 2-186 (190)
5 PF13774 Longin: Regulated-SNA 99.9 1.3E-20 2.9E-25 124.9 11.1 81 31-112 1-82 (83)
6 KOG0860 Synaptobrevin/VAMP-lik 99.7 7.8E-17 1.7E-21 110.3 7.0 55 128-183 28-82 (116)
7 PF00957 Synaptobrevin: Synapt 99.6 3.4E-15 7.3E-20 100.2 7.0 52 128-179 2-53 (89)
8 COG5143 SNC1 Synaptobrevin/VAM 94.2 0.043 9.4E-07 41.4 2.7 49 130-179 95-143 (190)
9 PF04086 SRP-alpha_N: Signal r 94.0 0.15 3.2E-06 41.0 5.7 65 28-94 4-70 (279)
10 PF09426 Nyv1_N: Vacuolar R-SN 91.9 0.29 6.2E-06 34.8 3.9 55 33-87 48-110 (141)
11 PF04099 Sybindin: Sybindin-li 91.3 4.2 9.1E-05 29.4 9.9 85 33-119 46-141 (142)
12 KOG0781 Signal recognition par 89.3 1.4 2.9E-05 38.3 6.4 86 7-94 4-95 (587)
13 PF01217 Clat_adaptor_s: Clath 82.5 15 0.00033 26.1 13.2 88 5-94 1-96 (141)
14 PF04799 Fzo_mitofusin: fzo-li 82.1 9.8 0.00021 28.4 7.1 48 129-176 109-156 (171)
15 KOG0938 Adaptor complexes medi 76.8 43 0.00093 28.0 11.6 85 8-94 6-93 (446)
16 PF06008 Laminin_I: Laminin Do 76.6 36 0.00079 27.0 9.8 58 111-174 180-237 (264)
17 smart00096 UTG Uteroglobin. 76.2 9 0.0002 24.2 4.6 42 114-155 21-62 (69)
18 cd00633 Secretoglobin Secretog 74.3 10 0.00023 23.4 4.7 43 112-154 17-59 (67)
19 PF01099 Uteroglobin: Uteroglo 72.0 9 0.00019 23.8 4.0 44 112-155 17-60 (67)
20 PF04628 Sedlin_N: Sedlin, N-t 67.8 40 0.00087 23.8 8.4 85 10-94 1-107 (132)
21 PF11675 DUF3271: Protein of u 64.9 28 0.0006 27.4 6.0 55 2-57 27-81 (249)
22 KOG1983 Tomosyn and related SN 59.9 5.6 0.00012 37.9 1.8 35 144-178 942-976 (993)
23 PHA02557 22 prohead core prote 58.6 62 0.0014 26.0 7.1 97 78-175 89-193 (271)
24 PF03164 Mon1: Trafficking pro 55.3 78 0.0017 27.1 7.8 67 28-94 37-104 (415)
25 KOG0811 SNARE protein PEP12/VA 53.8 63 0.0014 26.1 6.6 46 128-173 179-224 (269)
26 PRK11546 zraP zinc resistance 51.9 90 0.0019 22.7 6.5 57 80-146 50-106 (143)
27 KOG3369 Transport protein part 49.9 1.1E+02 0.0024 23.1 9.3 55 35-91 110-168 (199)
28 PF04510 DUF577: Family of unk 49.0 60 0.0013 24.4 5.4 97 64-171 65-161 (174)
29 PF12277 DUF3618: Protein of u 48.3 48 0.001 19.2 3.9 27 131-157 5-31 (49)
30 PF05527 DUF758: Domain of unk 48.0 76 0.0016 24.1 5.9 78 70-157 108-185 (186)
31 PF03908 Sec20: Sec20; InterP 47.2 80 0.0017 20.7 6.0 38 134-174 6-43 (92)
32 KOG3230 Vacuolar assembly/sort 46.0 82 0.0018 24.2 5.7 22 136-157 133-154 (224)
33 PF06825 HSBP1: Heat shock fac 45.8 50 0.0011 19.7 3.7 40 132-174 13-52 (54)
34 PHA03386 P10 fibrous body prot 45.5 67 0.0015 21.4 4.6 16 129-144 19-34 (94)
35 COG3524 KpsE Capsule polysacch 45.4 39 0.00084 27.8 4.2 17 129-145 230-246 (372)
36 PF05739 SNARE: SNARE domain; 44.5 67 0.0014 19.0 6.6 44 129-172 4-47 (63)
37 KOG2740 Clathrin-associated pr 41.6 81 0.0017 26.6 5.5 43 52-94 54-96 (418)
38 PF12352 V-SNARE_C: Snare regi 41.0 81 0.0018 19.0 6.4 46 128-173 7-52 (66)
39 smart00397 t_SNARE Helical reg 39.3 80 0.0017 18.5 7.2 47 129-175 12-58 (66)
40 PHA01811 hypothetical protein 38.7 41 0.00089 20.7 2.6 17 45-61 6-22 (78)
41 PF04048 Sec8_exocyst: Sec8 ex 35.7 1.6E+02 0.0035 21.0 6.5 43 129-171 79-121 (142)
42 PF08858 IDEAL: IDEAL domain; 34.8 79 0.0017 17.1 3.4 18 141-158 10-27 (37)
43 PLN03223 Polycystin cation cha 34.8 1.2E+02 0.0025 30.4 6.1 44 128-171 1580-1623(1634)
44 PF12325 TMF_TATA_bd: TATA ele 34.1 92 0.002 21.8 4.2 43 129-171 68-110 (120)
45 cd00193 t_SNARE Soluble NSF (N 33.0 1E+02 0.0022 17.7 7.2 47 129-175 6-52 (60)
46 PF00957 Synaptobrevin: Synapt 31.6 1.4E+02 0.0031 19.1 7.6 50 129-178 10-59 (89)
47 PF12579 DUF3755: Protein of u 29.7 40 0.00086 18.2 1.4 19 128-146 16-34 (35)
48 PF07352 Phage_Mu_Gam: Bacteri 29.2 2.2E+02 0.0048 20.4 7.0 52 128-179 9-61 (149)
49 TIGR01478 STEVOR variant surfa 28.5 61 0.0013 26.3 2.8 38 111-150 57-94 (295)
50 PF13228 DUF4037: Domain of un 28.4 1.9E+02 0.0041 19.4 7.7 64 108-176 23-86 (100)
51 PF13040 DUF3901: Protein of u 27.5 1.2E+02 0.0026 16.9 3.4 25 143-167 10-34 (40)
52 COG5113 UFD2 Ubiquitin fusion 26.7 1.3E+02 0.0028 27.6 4.7 39 147-186 672-710 (929)
53 KOG4117 Heat shock factor bind 26.7 1.6E+02 0.0036 18.2 6.4 19 156-174 47-65 (73)
54 PF05531 NPV_P10: Nucleopolyhe 26.4 1.6E+02 0.0036 18.8 4.0 39 129-171 18-56 (75)
55 PF05659 RPW8: Arabidopsis bro 25.9 1.1E+02 0.0023 22.3 3.5 51 109-160 31-82 (147)
56 PF07897 DUF1675: Protein of u 25.6 75 0.0016 25.8 2.9 27 49-75 237-263 (284)
57 PTZ00370 STEVOR; Provisional 25.3 78 0.0017 25.8 2.9 16 131-146 104-119 (296)
58 PF04155 Ground-like: Ground-l 24.2 1.1E+02 0.0025 19.1 3.1 6 113-118 10-15 (76)
59 PF06103 DUF948: Bacterial pro 24.0 2.1E+02 0.0045 18.4 6.0 20 154-173 65-84 (90)
60 PF10112 Halogen_Hydrol: 5-bro 23.8 2.1E+02 0.0045 21.6 5.0 58 112-174 136-196 (199)
61 KOG3368 Transport protein part 23.5 2.9E+02 0.0062 19.9 5.7 54 32-87 45-102 (140)
62 PF03607 DCX: Doublecortin; I 23.4 1.2E+02 0.0027 18.1 3.0 47 25-71 8-57 (60)
63 PLN00180 NDF6 (NDH-dependent f 22.6 1.4E+02 0.0031 22.0 3.5 32 141-172 143-174 (180)
64 cd01617 DCX Ubiquitin-like dom 22.6 1.4E+02 0.003 19.0 3.2 49 24-72 24-77 (80)
65 COG0776 HimA Bacterial nucleoi 22.5 89 0.0019 20.9 2.3 28 134-161 18-45 (94)
66 cd07634 BAR_GAP10-like The Bin 22.4 3.5E+02 0.0076 20.9 5.9 73 78-154 14-95 (207)
67 cd00223 TOPRIM_TopoIIB_SPO TOP 22.3 1.2E+02 0.0025 22.1 3.2 26 64-89 25-50 (160)
68 PF05542 DUF760: Protein of un 22.1 85 0.0018 20.5 2.2 27 130-156 14-41 (86)
69 PF11887 DUF3407: Protein of u 21.9 4.2E+02 0.009 21.2 6.7 53 129-181 66-118 (267)
70 KOG2866 Uncharacterized conser 21.8 4.2E+02 0.009 22.3 6.5 40 128-167 88-127 (349)
71 PRK00807 50S ribosomal protein 21.8 1.4E+02 0.003 17.5 2.8 22 38-59 10-31 (52)
72 PHA02604 rI.-1 hypothetical pr 21.6 3E+02 0.0066 19.4 6.6 79 71-152 37-123 (126)
73 KOG3809 Microtubule-binding pr 20.7 2E+02 0.0044 25.0 4.6 35 129-163 546-580 (583)
74 PF03555 Flu_C_NS2: Influenza 20.6 1.2E+02 0.0025 17.5 2.2 33 143-175 5-38 (57)
75 PHA03011 hypothetical protein; 20.4 2.9E+02 0.0063 18.8 6.2 56 111-169 63-118 (120)
76 cd02678 MIT_VPS4 MIT: domain c 20.2 1.4E+02 0.003 18.6 2.9 27 140-166 47-73 (75)
77 PHA03395 p10 fibrous body prot 20.1 2.4E+02 0.0051 18.6 3.9 15 129-143 18-32 (87)
No 1
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-54 Score=318.69 Aligned_cols=175 Identities=70% Similarity=1.039 Sum_probs=166.4
Q ss_pred cceEEEEEEcCCeeEEeecCCCCCHHHHHHHHHccCCCC-CCeeEEEeCCeEEEEEEeCCEEEEEEecCCCCcccHHHHH
Q 029864 4 KSLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPAS-NNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFL 82 (186)
Q Consensus 4 ~~I~Y~~Iar~~~iL~e~~~~~~~~~~~a~~il~ki~~~-~~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~~~~af~fL 82 (186)
|+|+|++||||++|||||++.+|||..++.++|+|+|++ +.|.+|.+|+|+|||+.+||++|+|+++.+..+++||.||
T Consensus 1 m~iiYs~VARGTvvLaeft~~~gNf~sva~qiL~klp~~~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFL 80 (217)
T KOG0859|consen 1 MSIIYSFVARGTVILAEFTEFSGNFSSIAAQILQKLPSSSNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFL 80 (217)
T ss_pred CceeEEEEecceEEEEeeeeccCCHHHHHHHHHHhCCCCCCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHH
Confidence 689999999999999999999999999999999999998 5799999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHH
Q 029864 83 ERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELL 162 (186)
Q Consensus 83 ~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L 162 (186)
++|++.|.+.|++ ...++.+|+++.+|++.|++.|++|.++|. .|++.+++.+++|||+||.+|||++|+|||+||.|
T Consensus 81 e~Ik~~F~k~YG~-~a~ta~AysmN~EFs~vL~qqm~y~s~~p~-id~lskvkaqv~evk~vM~eNIekvldRGekiELL 158 (217)
T KOG0859|consen 81 ERIKEDFKKRYGG-GAHTAVAYSMNKEFSSVLKQQMQYCSEHPE-ISKLAKVKAQVTEVKGVMMENIEKVLDRGEKIELL 158 (217)
T ss_pred HHHHHHHHHHhcc-chhHHHHhHhHHHHHHHHHHHHHHHHcCcc-hhHHHHHHHHHHHHHHHHHHHHHHHHhccCeEEee
Confidence 9999999999974 477888999999999999999999988888 69999999999999999999999999999999999
Q ss_pred HHhhHHHHHhhHhhhhhhh
Q 029864 163 VDKTENLHQQVSVSFRFCA 181 (186)
Q Consensus 163 ~~ks~~L~~~s~~~~k~~~ 181 (186)
++||++|+.+|..| |..+
T Consensus 159 VdKTenl~~~s~~f-r~q~ 176 (217)
T KOG0859|consen 159 VDKTENLRSKSFDF-RTQG 176 (217)
T ss_pred echhhhhhhhhHHH-HHHH
Confidence 99999999999975 5533
No 2
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7e-40 Score=236.59 Aligned_cols=177 Identities=23% Similarity=0.356 Sum_probs=151.6
Q ss_pred cceEEEEEEcCC----eeEEeecCCC-------CCHH----HHHHHHHccCCCCCCeeEEEeCCeEEEEE-EeCCEEEEE
Q 029864 4 KSLIYAFVARGN----VVLAEYTEFS-------GNFN----SIAYQCLQKLPASNNKFTYNCDAHTFNYL-VDNGYTYCV 67 (186)
Q Consensus 4 ~~I~Y~~Iar~~----~iL~e~~~~~-------~~~~----~~a~~il~ki~~~~~k~~~~~~~~~f~~l-~~~~~~~~~ 67 (186)
|.|++..|-+.+ .+|+.-++-+ ++.. -+++.+.+|.+|+ ++++++++.|.+|.. ..+|+++++
T Consensus 1 Mki~sl~V~~~~~~~~~ll~~a~dls~FsfFqRssV~Efm~F~sktvaeRt~~g-~rqsvk~~~Y~~h~yvrndgL~~V~ 79 (198)
T KOG0861|consen 1 MKIYSLSVLHKGTSDVKLLKTASDLSSFSFFQRSSVQEFMTFISKTVAERTGPG-QRQSVKHEEYLVHVYVRNDGLCGVL 79 (198)
T ss_pred CceEEEEEEeeCCcchhhhhhhcccccccceeeccHHHHHHHHHHHHHHhcCcc-cccccccceeEEEEEEecCCeeEEE
Confidence 567777777752 3566554322 3333 3789999999998 589999999999955 456999999
Q ss_pred EecCCCCcccHHHHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHH
Q 029864 68 VADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMME 147 (186)
Q Consensus 68 vt~~~~~~~~af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ 147 (186)
++|.+||.|+||.+|.+|.++|....+..+|+...+.. ..| |.|..++.+| +||.+.|+|.++|++|||||.||.+
T Consensus 80 ~~D~eYP~rvA~tLL~kvld~~~~k~~~~~W~~~~~~~--~~~-~~L~~~l~ky-qdP~ead~l~kvQ~EldETKiiLhk 155 (198)
T KOG0861|consen 80 IADDEYPVRVAFTLLNKVLDEFTTKVPATQWPVGETAD--LSY-PYLDTLLSKY-QDPAEADPLLKVQNELDETKIILHK 155 (198)
T ss_pred EecCcCchhHHHHHHHHHHHHHhhcCcccccCcCCCcC--CCc-hhHHHHHHHh-cChhhhChHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999998888888898443333 333 8899999999 9999999999999999999999999
Q ss_pred hHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhh-hhcccC
Q 029864 148 NIEKVLDRGEKIELLVDKTENLHQQVSVSFRF-CATNVC 185 (186)
Q Consensus 148 ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~-~~~n~~ 185 (186)
+|+.+|+|||+||+|++||+.|+.+|++|||+ +++|||
T Consensus 156 TiesVL~RgEKLDdLV~KSe~Ls~qSKmfYKsAKK~NsC 194 (198)
T KOG0861|consen 156 TIESVLERGEKLDDLVSKSENLSLQSKMFYKSAKKTNSC 194 (198)
T ss_pred HHHHHHHccchHHHHHHHHHhhhHHHHHHHHHHhhcCCc
Confidence 99999999999999999999999999999999 999998
No 3
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=5.6e-34 Score=213.85 Aligned_cols=173 Identities=23% Similarity=0.436 Sum_probs=155.3
Q ss_pred ceEEEEEEcC--CeeEEeecC---CCCC----HHHHHHHHHccCCCC-CCeeEEEeCCeEEEEEEeCCEEEEEEecCCCC
Q 029864 5 SLIYAFVARG--NVVLAEYTE---FSGN----FNSIAYQCLQKLPAS-NNKFTYNCDAHTFNYLVDNGYTYCVVADESSG 74 (186)
Q Consensus 5 ~I~Y~~Iar~--~~iL~e~~~---~~~~----~~~~a~~il~ki~~~-~~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~ 74 (186)
||++++|+|. +.|||...+ .+++ +.+.++.+++++.+. +++++++.+.|.|||++++|++|+++|+..||
T Consensus 1 mi~~T~I~RV~DGLPLa~s~d~~e~~~~s~~e~r~q~K~L~kkLs~~s~~r~Sietg~f~fHfli~~~Vcylvicd~~yP 80 (216)
T KOG0862|consen 1 MILLTLIARVRDGLPLAASTDDNEQSGDSLLEYRQQAKSLFKKLSQQSPTRCSIETGPFVFHFLIESGVCYLVICDKSYP 80 (216)
T ss_pred CceeEEEEEecCCcccccccCcccCCCchHHHHHHHHHHHHHhccCCCCcccccccCCeEEEEEecCCEEEEEEecCCCc
Confidence 6899999994 589998765 2233 357899999999988 78999999999999999999999999999999
Q ss_pred cccHHHHHHHHHHHHHhhhCCCCCC-CCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHH
Q 029864 75 RQIPMAFLERVKDEFVSKYGGGKAA-TAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVL 153 (186)
Q Consensus 75 ~~~af~fL~ei~~~f~~~~~~~~~~-~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il 153 (186)
+.+||.||+++.++|...++..... ..+||++ .+|++.|++..++| +|++..+.+.++.+++.+|+.+|.+||+++|
T Consensus 81 ~kLAF~YLedL~~EF~~~~~~~~~~~~~RPY~F-ieFD~~IQk~Kk~y-nd~r~~~n~~~~n~el~~v~~im~~niedvl 158 (216)
T KOG0862|consen 81 RKLAFSYLEDLAQEFDKSYGKNIIQPASRPYAF-IEFDTFIQKTKKRY-NDTRSQRNLLKLNQELQDVQRIMVENLEDVL 158 (216)
T ss_pred HHHHHHHHHHHHHHHHHhcccccCCccCCCeeE-EehhHHHHHHHHHh-cCcHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 9999999999999999999754333 5789999 99999999999999 7887789999999999999999999999999
Q ss_pred HhhhhhHHHHHhhHHHHHhhHhhhhhh
Q 029864 154 DRGEKIELLVDKTENLHQQVSVSFRFC 180 (186)
Q Consensus 154 ~Rge~l~~L~~ks~~L~~~s~~~~k~~ 180 (186)
.|||.|+.|...+..|+..|+. ++.+
T Consensus 159 ~rg~~l~~l~~~~s~l~~~s~~-y~~~ 184 (216)
T KOG0862|consen 159 QRGEVLNALSSMASELSSESRK-YPKT 184 (216)
T ss_pred hhchHHHhhhhhhhcccHHHHh-hHHH
Confidence 9999999999999999999974 5653
No 4
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]
Probab=99.94 E-value=3e-25 Score=164.55 Aligned_cols=176 Identities=23% Similarity=0.311 Sum_probs=137.4
Q ss_pred ceEEEEEEcCC--eeEEee-cCCCCCH--HHHHHHHHccCCCC-CCeeEEEeCCeEEEEEEeC-CEEEEEEecCCCCccc
Q 029864 5 SLIYAFVARGN--VVLAEY-TEFSGNF--NSIAYQCLQKLPAS-NNKFTYNCDAHTFNYLVDN-GYTYCVVADESSGRQI 77 (186)
Q Consensus 5 ~I~Y~~Iar~~--~iL~e~-~~~~~~~--~~~a~~il~ki~~~-~~k~~~~~~~~~f~~l~~~-~~~~~~vt~~~~~~~~ 77 (186)
.++|..+..+. .+|++- +..+..| ...+..+|.++.|. .++..++.++|.|||...+ |++|+|+|+++||.++
T Consensus 2 ~s~~~~~~~~~~~~~~~~~~s~~~~~ff~~~~v~~~l~~~~~~~a~~~~ies~~~~~~~~~~s~gi~y~~~~~~e~p~~l 81 (190)
T COG5143 2 ASISLFRVKGEPLRTLSDAESLSSFSFFHRSKVKEVLRFLSKTSASRASIESGDYFFHYLKMSSGIVYVPISDKEYPNKL 81 (190)
T ss_pred ceEEEEeecCCcceeeccccccCcccccccchHHHHHHHhcccccchhccccCceEEEEEecCCCceeEEecccccchhh
Confidence 35666666664 234433 2223333 24677888887765 3466778889999999765 9999999999999999
Q ss_pred HHHHHHHHHHHHHhhhCCCCCCCCC-CCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhh
Q 029864 78 PMAFLERVKDEFVSKYGGGKAATAP-ANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRG 156 (186)
Q Consensus 78 af~fL~ei~~~f~~~~~~~~~~~~~-~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rg 156 (186)
|+..|+++..+|.......+|.... ++.. ..|.+.+.+ .| ++|...|++.+++.+++|||++|.+||+++|.||
T Consensus 82 a~~~~~~~~~~~~~s~~~~~~~d~~~~~~~-~~~d~~~e~---~y-~d~s~~D~~d~l~~el~e~K~~l~k~ie~~l~R~ 156 (190)
T COG5143 82 AYGYLNSIATEFLKSSALEQLIDDTVGIMR-VNIDKVIEK---GY-RDPSIQDKLDQLQQELEETKRVLNKNIEKVLYRD 156 (190)
T ss_pred hhHHHHhhccHhhhhhhHhhcccCccchhh-hhHHHHHHh---hc-CCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 9999999999998877655554332 3333 345555544 27 8999889999999999999999999999999999
Q ss_pred hhhHHHHHhhHHHHHhhHhhhhh-hhcccC
Q 029864 157 EKIELLVDKTENLHQQVSVSFRF-CATNVC 185 (186)
Q Consensus 157 e~l~~L~~ks~~L~~~s~~~~k~-~~~n~~ 185 (186)
|+|+.|+++|..|...|+.|+|. ++.|+|
T Consensus 157 ekl~~lv~~ss~L~~~s~~~~k~akk~n~~ 186 (190)
T COG5143 157 EKLDLLVDLSSILLLSSKMFPKSAKKSNLC 186 (190)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999999998888 888887
No 5
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=99.85 E-value=1.3e-20 Score=124.94 Aligned_cols=81 Identities=33% Similarity=0.705 Sum_probs=73.2
Q ss_pred HHHHHHccCCCCC-CeeEEEeCCeEEEEEEeCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhCCCCCCCCCCCCccch
Q 029864 31 IAYQCLQKLPASN-NKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKE 109 (186)
Q Consensus 31 ~a~~il~ki~~~~-~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~ 109 (186)
+|++||+++++.+ .|.+++.++|.|||+.++|++|+|||+++||+++||.||++|+++|...++..++.++.|+++ .+
T Consensus 1 ~a~~il~~i~~~~~~k~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~~~~~~~a~~~~~-~~ 79 (83)
T PF13774_consen 1 QARKILKRIPPNGNSKMSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYGGDQIKSASPYSF-KE 79 (83)
T ss_dssp HHHHHHHTS-TTSESEEEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCTTTTTTTSTTTTT-HH
T ss_pred CHHHHHHhcCCCCCCeEEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcCcchhcccCCcch-hh
Confidence 5899999999765 899999999999999999999999999999999999999999999999998677888889998 88
Q ss_pred hhH
Q 029864 110 FGP 112 (186)
Q Consensus 110 F~~ 112 (186)
|++
T Consensus 80 F~~ 82 (83)
T PF13774_consen 80 FDS 82 (83)
T ss_dssp HHH
T ss_pred cCC
Confidence 875
No 6
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.69 E-value=7.8e-17 Score=110.25 Aligned_cols=55 Identities=44% Similarity=0.607 Sum_probs=50.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhhhhcc
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFRFCATN 183 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~~~~n 183 (186)
.+++.++|.+++||++||.+||+|+|||||+|++|++||+.|...|.. |++++.+
T Consensus 28 ~~k~~~tq~QvdeVv~IMr~NV~KVlER~ekL~~L~drad~L~~~as~-F~~~A~k 82 (116)
T KOG0860|consen 28 NDKLQQTQAQVDEVVDIMRENVEKVLERGEKLDELDDRADQLQAGASQ-FEKTAVK 82 (116)
T ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhcchHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 499999999999999999999999999999999999999999999998 4665543
No 7
>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=99.59 E-value=3.4e-15 Score=100.19 Aligned_cols=52 Identities=46% Similarity=0.614 Sum_probs=49.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhh
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFRF 179 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~ 179 (186)
.|++.+++.++++|+++|.+||+++++|||+||+|++||++|+..|..|.++
T Consensus 2 ~dkl~~i~~~v~~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~~a~~F~k~ 53 (89)
T PF00957_consen 2 NDKLEQIQEQVEEVKNIMRENIDKLLERGEKLEELEDKTEELSDNAKQFKKN 53 (89)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhHHHHHH
Confidence 4899999999999999999999999999999999999999999999987666
No 8
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]
Probab=94.18 E-value=0.043 Score=41.42 Aligned_cols=49 Identities=24% Similarity=0.422 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhh
Q 029864 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFRF 179 (186)
Q Consensus 130 kl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~ 179 (186)
+...++..+++++.+|..|+++.++||++...+.++.++|..+.+. +|+
T Consensus 95 ~s~~~~~~~d~~~~~~~~~~d~~~e~~y~d~s~~D~~d~l~~el~e-~K~ 143 (190)
T COG5143 95 KSSALEQLIDDTVGIMRVNIDKVIEKGYRDPSIQDKLDQLQQELEE-TKR 143 (190)
T ss_pred hhhhHhhcccCccchhhhhHHHHHHhhcCCchhhhHHHHHHHHHHH-HHH
Confidence 5778889999999999999999999999999999999999999986 566
No 9
>PF04086 SRP-alpha_N: Signal recognition particle, alpha subunit, N-terminal; InterPro: IPR007222 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents the alpha subunit of the SR receptor.; GO: 0003924 GTPase activity, 0005047 signal recognition particle binding, 0005525 GTP binding, 0006184 GTP catabolic process, 0006886 intracellular protein transport, 0005785 signal recognition particle receptor complex; PDB: 2FH5_A 2GO5_1.
Probab=93.99 E-value=0.15 Score=40.99 Aligned_cols=65 Identities=25% Similarity=0.377 Sum_probs=41.2
Q ss_pred HHHHHHHHHccCCCCCCeeEEEeCCeEEEEEEeC--CEEEEEEecCCCCcccHHHHHHHHHHHHHhhhC
Q 029864 28 FNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDN--GYTYCVVADESSGRQIPMAFLERVKDEFVSKYG 94 (186)
Q Consensus 28 ~~~~a~~il~ki~~~~~k~~~~~~~~~f~~l~~~--~~~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~ 94 (186)
...+++.+|-.=.. ...+|++++|..+|...+ +++||+|-..-..-.-+=.||+.|+..|...|.
T Consensus 4 in~LI~~vlleeR~--~~~~~~~d~y~lkw~~~Ne~~LvfVvvYq~il~l~yvd~LL~~v~~~F~~~y~ 70 (279)
T PF04086_consen 4 INALIRDVLLEERS--GNSSFTYDNYTLKWTLDNELGLVFVVVYQKILQLTYVDKLLDDVKKEFVKLYK 70 (279)
T ss_dssp HHHHHHHTGGG---------------EEEEEEETTTTEEEEEEES-GGGHHHHHHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhheeecc--CCCceeEcCEEEEEEEeccCCEEEeeeecccccchHHHHHHHHHHHHHHHHHh
Confidence 34566666544222 234689999998888765 799999998888888888999999999999885
No 10
>PF09426 Nyv1_N: Vacuolar R-SNARE Nyv1 N terminal; InterPro: IPR019005 This entry represents the N-terminal domain of vacuolar R-SNARE Nyv1, which adopts a longin fold []. Vacuolar v-SNARE is required for docking and is only involved in homotypic vacuole fusion. Nyv1 is required for Ca(2+) efflux from the vacuolar lumen, a required signal for subsequent membrane fusion events, by inhibiting vacuolar Ca(2+)-ATPase PMC1 and promoting Ca(2+) release when forming trans-SNARE assemblies during the docking step. In yeast, the N-terminal domain of Nyv1 is sufficient to direct the transport of Nyv1 to limiting membrane of the vacuole []. ; PDB: 2FZ0_A.
Probab=91.87 E-value=0.29 Score=34.77 Aligned_cols=55 Identities=18% Similarity=0.285 Sum_probs=35.4
Q ss_pred HHHHccCCCC--C--CeeEEE-eCCeEEEEEE---eCCEEEEEEecCCCCcccHHHHHHHHHH
Q 029864 33 YQCLQKLPAS--N--NKFTYN-CDAHTFNYLV---DNGYTYCVVADESSGRQIPMAFLERVKD 87 (186)
Q Consensus 33 ~~il~ki~~~--~--~k~~~~-~~~~~f~~l~---~~~~~~~~vt~~~~~~~~af~fL~ei~~ 87 (186)
..+++++.|- + +|++.. .+||-.+|-. +++-+++|++..+.|+-++-..|.|++.
T Consensus 48 dmVlPkVV~v~GNKVTK~S~~lIDGyDCYYTT~~~d~~~vlVCFt~~~vPKILPiRlLSeLK~ 110 (141)
T PF09426_consen 48 DMVLPKVVPVEGNKVTKMSMHLIDGYDCYYTTEDNDDNKVLVCFTRVDVPKILPIRLLSELKG 110 (141)
T ss_dssp HTTGGG----SS-SSEE--S--SSSEEEEE---SS-TTEEEEEEEETTS-SSHHHHHHHHHTT
T ss_pred hccccceEEccCCeEEEEEeecccccceeeecccCCCCeEEEEEEecCCcceecHHHHHhhcc
Confidence 3456666544 2 455544 5799888876 4789999999999999999999999973
No 11
>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=91.34 E-value=4.2 Score=29.36 Aligned_cols=85 Identities=12% Similarity=0.137 Sum_probs=47.1
Q ss_pred HHHHccCCCC---------CCeeEEEeCCeEEEEEE-eCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhCCCCCC-CC
Q 029864 33 YQCLQKLPAS---------NNKFTYNCDAHTFNYLV-DNGYTYCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAA-TA 101 (186)
Q Consensus 33 ~~il~ki~~~---------~~k~~~~~~~~~f~~l~-~~~~~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~~~~~~-~~ 101 (186)
+.+..++.|. ..-.+++.+.|..|++. ..|+-|+++||+..+. ..-.++..+...|..-.-.+..- ..
T Consensus 46 ~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~eT~TGlKFvl~td~~~~~-~~~~l~~~~~~lY~dyV~KNPfy~~~ 124 (142)
T PF04099_consen 46 KAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCFETPTGLKFVLITDPNVPS-LRDELLRIYYELYVDYVVKNPFYSLE 124 (142)
T ss_dssp HHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEEE-TTS-EEEEEE-TTCCH-CHHHHHHHHHHHHHHHHHS-TTS-TT
T ss_pred HHHHHHhCCCCcccccccceeEEEEEeCCEEEEEEEcCcCcEEEEEecCCCcc-HHHHHHHHHHHHHHHHHhhCCCCCCC
Confidence 5566666662 24567888999999885 4899999999999863 44556666666665433222221 11
Q ss_pred CCCCccchhhHHHHHHHH
Q 029864 102 PANGLNKEFGPKLKELMQ 119 (186)
Q Consensus 102 ~~~~l~~~F~~~l~~~~~ 119 (186)
-|-. +..|+..|.++++
T Consensus 125 ~pI~-~~lF~~~l~~~~~ 141 (142)
T PF04099_consen 125 MPIR-CELFDTKLDQYVK 141 (142)
T ss_dssp S-----HHHHHHHHHHHH
T ss_pred CcEe-hHHHHHHHHHHHh
Confidence 1111 2456666666553
No 12
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.32 E-value=1.4 Score=38.34 Aligned_cols=86 Identities=22% Similarity=0.323 Sum_probs=63.0
Q ss_pred EEEEEEcCCeeEEeecCCCCCHH----HHHHHHHccCCCCCCeeEEEeCCeEEEEEEe--CCEEEEEEecCCCCcccHHH
Q 029864 7 IYAFVARGNVVLAEYTEFSGNFN----SIAYQCLQKLPASNNKFTYNCDAHTFNYLVD--NGYTYCVVADESSGRQIPMA 80 (186)
Q Consensus 7 ~Y~~Iar~~~iL~e~~~~~~~~~----~~a~~il~ki~~~~~k~~~~~~~~~f~~l~~--~~~~~~~vt~~~~~~~~af~ 80 (186)
.++.+.+|..+|--|.....+|. .+++.+|-.=.. +-.+++.+.|+.-|-.+ -+++|+|+-.+-..-..+-.
T Consensus 4 ~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~er~--~~~~~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~yv~~ 81 (587)
T KOG0781|consen 4 QFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLSERG--GVNSFTFEAYTLKYQLDNQYSLVFVVVFQKILTLTYVDK 81 (587)
T ss_pred eeeeecCCcEEEEEecccchhccchHHHHHHHHHHHhhc--CcccCchhheeEeeeecCCccEEEEEEEeccchhhhHHH
Confidence 57888999999999987665554 445554433111 12236777787666554 57999999998888888899
Q ss_pred HHHHHHHHHHhhhC
Q 029864 81 FLERVKDEFVSKYG 94 (186)
Q Consensus 81 fL~ei~~~f~~~~~ 94 (186)
||+++.+.|...|.
T Consensus 82 ll~~v~~~f~e~~~ 95 (587)
T KOG0781|consen 82 LLNDVLNLFREKYD 95 (587)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999998885
No 13
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=82.46 E-value=15 Score=26.10 Aligned_cols=88 Identities=17% Similarity=0.281 Sum_probs=60.1
Q ss_pred ceEEEEEEc--CCeeEEeecCC-CCC-----HHHHHHHHHccCCCCCCeeEEEeCCeEEEEEEeCCEEEEEEecCCCCcc
Q 029864 5 SLIYAFVAR--GNVVLAEYTEF-SGN-----FNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQ 76 (186)
Q Consensus 5 ~I~Y~~Iar--~~~iL~e~~~~-~~~-----~~~~a~~il~ki~~~~~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~~~ 76 (186)
||...+|.. |..+++-|=.. +.. +....+.+..+-+.. --.+.++++.+-|..-+++.++++++.+...-
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~--~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel 78 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRDVSEEERQKLFEKFIKKKSSRNSKQ--SPIFEHDNYRIVYKRYSDLYFVVVGDENENEL 78 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSSSSS--TSEEEETTEEEEEEEETTEEEEEEESSTSBHH
T ss_pred CEEEEEEEcCCCCEEEehhcCCccHHHHHHHHHHHHHHHHhccccc--ceeeecccceeeeEeeccEEEEEEeecccchH
Confidence 456666665 44777777422 211 233333444442211 23467889988888889999999999999998
Q ss_pred cHHHHHHHHHHHHHhhhC
Q 029864 77 IPMAFLERVKDEFVSKYG 94 (186)
Q Consensus 77 ~af~fL~ei~~~f~~~~~ 94 (186)
....||..+.+.+..-++
T Consensus 79 ~~~e~l~~~v~~l~~~~~ 96 (141)
T PF01217_consen 79 LLLEFLHRLVEVLDDYFG 96 (141)
T ss_dssp HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHhhhhhhhhhc
Confidence 999999999988877664
No 14
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=82.09 E-value=9.8 Score=28.42 Aligned_cols=48 Identities=19% Similarity=0.307 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVS 176 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~ 176 (186)
.-...+..++++++.-|.+.|+++=..-++||.+..++..|...+..+
T Consensus 109 ~tf~rL~~~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L 156 (171)
T PF04799_consen 109 STFARLCQQVDQTKNELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWL 156 (171)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788899999999999999999999999999999999998887744
No 15
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.83 E-value=43 Score=28.00 Aligned_cols=85 Identities=12% Similarity=0.259 Sum_probs=59.1
Q ss_pred EEEEEcCCeeEEeec--CCCCCHHHHHHH-HHccCCCCCCeeEEEeCCeEEEEEEeCCEEEEEEecCCCCcccHHHHHHH
Q 029864 8 YAFVARGNVVLAEYT--EFSGNFNSIAYQ-CLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLER 84 (186)
Q Consensus 8 Y~~Iar~~~iL~e~~--~~~~~~~~~a~~-il~ki~~~~~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~~~~af~fL~e 84 (186)
|..=.||+++++-.= +-.++..++.+- ++.......+ ..+.++-.|||...+++-.++||.........|.||.+
T Consensus 6 fi~n~rGevlink~fr~dlkrs~~diFRv~vi~n~d~r~P--V~~igsttf~~~r~~nl~lvaitksN~Nva~v~eFl~k 83 (446)
T KOG0938|consen 6 FIYNLRGEVLINKTFRDDLKRSIVDIFRVQVINNLDVRSP--VLTIGSTTFHHIRSSNLWLVAITKSNANVAAVFEFLYK 83 (446)
T ss_pred EEEeccCcEEEehhhhhhhhhhHHHHHHHhhhhccccCCC--eeEecceeEEEEeeccEEEEEEecCCCchhhHHHHHHH
Confidence 444568888777652 233455544432 3333322221 35778999999999999999999999999999999999
Q ss_pred HHHHHHhhhC
Q 029864 85 VKDEFVSKYG 94 (186)
Q Consensus 85 i~~~f~~~~~ 94 (186)
+-+-+..-++
T Consensus 84 l~avm~aYfg 93 (446)
T KOG0938|consen 84 LDAVMNAYFG 93 (446)
T ss_pred HHHHHHHHhc
Confidence 9887766554
No 16
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=76.56 E-value=36 Score=27.02 Aligned_cols=58 Identities=16% Similarity=0.220 Sum_probs=33.7
Q ss_pred hHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhH
Q 029864 111 GPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVS 174 (186)
Q Consensus 111 ~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~ 174 (186)
.+.|...+..| . +|+..++.-|++..+...+--+.--.+...|+++..|-+.|+..-.
T Consensus 180 ~~~i~~~L~~~-~-----~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k~~~l~~~~~ 237 (264)
T PF06008_consen 180 AEAIRDDLNDY-N-----AKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKKKQELSEQQN 237 (264)
T ss_pred HHHHHHHHHHH-H-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555 1 5666666666666666655555555556666666666665555433
No 17
>smart00096 UTG Uteroglobin.
Probab=76.18 E-value=9 Score=24.15 Aligned_cols=42 Identities=17% Similarity=0.215 Sum_probs=32.5
Q ss_pred HHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 029864 114 LKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDR 155 (186)
Q Consensus 114 l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~R 155 (186)
....++.|+.+|...+...+++.-+|....-=+.||-++|++
T Consensus 21 Y~~~l~~y~~~~~~~ea~~~lK~cvD~L~~~~k~~i~~ll~k 62 (69)
T smart00096 21 YEASLKQFKPDPDMLEAGRQLKKLVDTLPQETRENILKLTEK 62 (69)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 445667787788888999999999988777777777777654
No 18
>cd00633 Secretoglobin Secretoglobins are relatively small, secreted, disulphide-bridged dimeric proteins with encoding genes sharing substantial sequence similarity. Their family subunits may be grouped into five subfamilies, A-E. Uteroglobin (subfamily A), which is identical to Clara cell protein (CC10), forms a globular shaped homodimer with a large hydrophobic pocket located between the two dimers. The uteroglobin monomer structure is composed of four alpha helices that do not form a canonical four helix-bundle motif but rather a boomerang-shaped structure in which helices H1, H3, and H4 are able to bind a homodimeric partner. The hydrophobic pocket binds steroids, particularly progesterone, with high specificity. However, the true biological function of uteroglobin is poorly understood. In mammals, uteroglobin has immunosuppressive and anti-inflammatory properties through the inhibition of phospholipase A2. The other four main subfamilies of secretoglobins are found in heterodimeri
Probab=74.30 E-value=10 Score=23.41 Aligned_cols=43 Identities=28% Similarity=0.299 Sum_probs=33.3
Q ss_pred HHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 029864 112 PKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLD 154 (186)
Q Consensus 112 ~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~ 154 (186)
..+...++.||.+|.......++|+-+++....=+.|+-++|+
T Consensus 17 ~~y~~~L~~f~~~~~~~~A~~~lK~C~d~~~~e~k~~~~~~m~ 59 (67)
T cd00633 17 EEYKAELEKFNATPEAVEAKEKLKQCVDEQSLETKENIAKLLE 59 (67)
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Confidence 4567778888778888899999999998876666666666654
No 19
>PF01099 Uteroglobin: Uteroglobin family; InterPro: IPR006038 Uteroglobin (or blastokinin) is a mammalian steroid-inducible secreted protein originally isolated from the uterus of rabbits during early pregnancy. The mucosal epithelia of several organs that communicate with the external environment express uteroglobin. Its tissue-specific expression is regulated by steroid hormones, and is augmented in the uterus by non-steroidal prolactin. Uteroglobin may be a multi-functional protein with anti-inflammatory/immunomodulatory properties, acting to inhibit phospholipase A2 activity, and binding to (and possibly sequestering) several hydrophobic ligands such as progesterone, retinols, polychlorinated biphenyls, phospholipids and prostaglandins. In addition, uteroglobin has anti-chemotactic, anti-allergic, anti-tumourigenic and embryo growth-stimulatory properties. Uteroglobin may have a homeostatic role against oxidative damage, inflammation, autoimmunity and cancer [, , , ]. Uteroglobin consists of a disulphide-linked dimer of two identical polypeptides, each polypeptide being composed of four helices. It is a member of the secretoglobin superfamily. This entry represents uteroglobin proteins from several mammalian species, as well as other members of the secretoglobin superfamily, such as lipophilin B [], prostatic steroid-binding protein [], mammaglobin [], and the related allergen Fel d 1 (Felis domesticus allergen 1) [].; GO: 0005488 binding, 0005576 extracellular region; PDB: 1UTR_B 1CCD_A 1UTG_A 2UTG_A 1ZKR_B 1PUO_B 2EJN_B.
Probab=71.96 E-value=9 Score=23.79 Aligned_cols=44 Identities=27% Similarity=0.342 Sum_probs=31.6
Q ss_pred HHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 029864 112 PKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDR 155 (186)
Q Consensus 112 ~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~R 155 (186)
+..+..++.|+.+|.......++++-++..-.-=+.||.++|++
T Consensus 17 ~~Y~~~l~~y~~~~~~~~A~~~lK~C~d~ls~e~~~~i~~~l~~ 60 (67)
T PF01099_consen 17 EEYKESLQKYNPPPEAVEAKLELKQCVDKLSNETRENILKLLEK 60 (67)
T ss_dssp HHHHHHHHCC---HHHHHHHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 45667788886777777889999999988777777788777754
No 20
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=67.81 E-value=40 Score=23.77 Aligned_cols=85 Identities=13% Similarity=0.207 Sum_probs=48.6
Q ss_pred EEEcCCeeEEeec--CCCCC--------HHH---HHHHHHccCC-C-C-C--CeeEEEeCCe-EEEEEEeCCEEEEEEec
Q 029864 10 FVARGNVVLAEYT--EFSGN--------FNS---IAYQCLQKLP-A-S-N--NKFTYNCDAH-TFNYLVDNGYTYCVVAD 70 (186)
Q Consensus 10 ~Iar~~~iL~e~~--~~~~~--------~~~---~a~~il~ki~-~-~-~--~k~~~~~~~~-~f~~l~~~~~~~~~vt~ 70 (186)
.|++.+.+|-+++ ..... ++- .|..+++..- . . + -+..+..+++ .|.|+...++=|+.+++
T Consensus 1 IIg~~n~PLy~~~~~~~~~~~~~~~~~l~~~~~h~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~ 80 (132)
T PF04628_consen 1 IIGPNNNPLYIRSFPSEKESSSSDARHLYQFIAHSSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHD 80 (132)
T ss_dssp EE-TTS-EEEEEEE--ST-CGHHHHHHHHHHHHHHHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEEC
T ss_pred CCCCCCcceEEEecCCCcccccchHHHHHHHHHHHHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEe
Confidence 4788887777764 22221 222 2344554322 2 1 1 2345566776 46688888999998887
Q ss_pred ---CCCCcccHHHHHHHHHHHHHhhhC
Q 029864 71 ---ESSGRQIPMAFLERVKDEFVSKYG 94 (186)
Q Consensus 71 ---~~~~~~~af~fL~ei~~~f~~~~~ 94 (186)
........-.|+.+++..|....-
T Consensus 81 ~~~~~~~d~~ik~fF~~vh~~Y~~~~~ 107 (132)
T PF04628_consen 81 MSDNSIRDEDIKQFFKEVHELYVKALC 107 (132)
T ss_dssp GGG-S--HHHHHHHHHHHHHHHHHHHT
T ss_pred cccCCcchHHHHHHHHHHHHHHHHHcc
Confidence 455667788999999999987663
No 21
>PF11675 DUF3271: Protein of unknown function (DUF3271); InterPro: IPR021689 This family of proteins with unknown function appears to be restricted to Plasmodium.
Probab=64.93 E-value=28 Score=27.43 Aligned_cols=55 Identities=15% Similarity=0.203 Sum_probs=41.7
Q ss_pred CCcceEEEEEEcCCeeEEeecCCCCCHHHHHHHHHccCCCCCCeeEEEeCCeEEEE
Q 029864 2 SQKSLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNY 57 (186)
Q Consensus 2 ~~~~I~Y~~Iar~~~iL~e~~~~~~~~~~~a~~il~ki~~~~~k~~~~~~~~~f~~ 57 (186)
++.+|-|..|+.-+..+.........+-.++..++..-..+ .+..++-++|.|-+
T Consensus 27 ~pk~i~y~sv~qpt~~f~~~~k~h~~YLdiIN~il~~eSeN-~Kyayeg~nYHwvI 81 (249)
T PF11675_consen 27 NPKPIAYISVAQPTATFEHDEKKHTKYLDIINDILRDESEN-IKYAYEGGNYHWVI 81 (249)
T ss_pred CCCceeEEeccCceEEEeecCccchhHHHHHHHHHhccccc-cceeeeCCceEEEE
Confidence 35689999999987777766666667788889998877765 67777777776533
No 22
>KOG1983 consensus Tomosyn and related SNARE-interacting proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.87 E-value=5.6 Score=37.94 Aligned_cols=35 Identities=14% Similarity=0.263 Sum_probs=29.3
Q ss_pred HHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhh
Q 029864 144 VMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFR 178 (186)
Q Consensus 144 im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k 178 (186)
....--+.+.+|||+|+.++++|++|.+.++.|..
T Consensus 942 ~~~~a~~~l~e~~erL~~~e~~t~~~~~sa~~~s~ 976 (993)
T KOG1983|consen 942 AASGALQPLNERGERLSRLEERTAEMANSAKQFSS 976 (993)
T ss_pred hhhhcchhhHhhccccchHHHHHHHhhccHHHHHH
Confidence 33445678899999999999999999999998644
No 23
>PHA02557 22 prohead core protein; Provisional
Probab=58.56 E-value=62 Score=25.98 Aligned_cols=97 Identities=21% Similarity=0.260 Sum_probs=65.1
Q ss_pred HHHHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHH-HhccCCch-hhHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 029864 78 PMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELM-QYCVDHPE-EISKLAKVKAQVSEVKGVMMENIEKVLDR 155 (186)
Q Consensus 78 af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~-~~y~~~~~-~~dkl~~i~~~l~ev~~im~~ni~~il~R 155 (186)
+-+||+.+-.+|...-. ..+.......+..+|-..|+.+. .++-.-|. ..|.+..+..+|++-..-...-++...+.
T Consensus 89 vd~~l~~~~~eW~~ENk-~Av~~~IKaem~Es~l~GLK~lF~Ehnv~vpee~vdvV~em~~~L~E~e~~~~~l~~en~~l 167 (271)
T PHA02557 89 ADKYLDHLAKEWLAENK-LAVDRGIKAELFESFLGGLKELFVEHNVVVPEEKVDVVAEMEEELDEMEEELNELFEENVAL 167 (271)
T ss_pred HHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHHHHHHhCcCCcHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45689998888876432 11111222223345556677776 55434454 45899999999999999998888888888
Q ss_pred hhhhHH------HHHhhHHHHHhhHh
Q 029864 156 GEKIEL------LVDKTENLHQQVSV 175 (186)
Q Consensus 156 ge~l~~------L~~ks~~L~~~s~~ 175 (186)
.+.++. |...|.+|.+..+.
T Consensus 168 ~e~i~~~~r~~i~~e~t~gLtdsQke 193 (271)
T PHA02557 168 EEYINEVKREVILSEVTKDLTESQKE 193 (271)
T ss_pred HHHHHHHHHHHHHHHHHcchhHHHHH
Confidence 887765 45667777776554
No 24
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=55.27 E-value=78 Score=27.11 Aligned_cols=67 Identities=7% Similarity=0.091 Sum_probs=49.2
Q ss_pred HHHHHHHHHccCCCC-CCeeEEEeCCeEEEEEEeCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhC
Q 029864 28 FNSIAYQCLQKLPAS-NNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLERVKDEFVSKYG 94 (186)
Q Consensus 28 ~~~~a~~il~ki~~~-~~k~~~~~~~~~f~~l~~~~~~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~ 94 (186)
+-.+.+.++.-.... +.-..+..++..|.|+..+.+.++||+..+-+......-|+-+.....+..+
T Consensus 37 ~~g~~~aiiS~~~~~~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~l~~qL~~ly~qils~lt 104 (415)
T PF03164_consen 37 LMGVIQAIISFFQSNGDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQLRKQLDYLYSQILSILT 104 (415)
T ss_pred HHHHHHHHHHHHHhCCCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHHHHHHHHHHHHHHHHhcc
Confidence 334455555544322 4455778899999999999999999999998887777788888777665543
No 25
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.83 E-value=63 Score=26.06 Aligned_cols=46 Identities=17% Similarity=0.286 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhh
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQV 173 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s 173 (186)
...+.+++.+|-||.+|+.+==--|=+-|+.+|.+.+.-+..+...
T Consensus 179 ~q~I~~lE~dI~dvN~IFkdL~~lV~eQG~~VDsIe~nve~a~~nv 224 (269)
T KOG0811|consen 179 EQAIEQLEADIIDVNEIFKDLGSLVHEQGELVDSIEANVENASVNV 224 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHHHHHHHHHHHHH
Confidence 3789999999999999999988888899999999888766665543
No 26
>PRK11546 zraP zinc resistance protein; Provisional
Probab=51.92 E-value=90 Score=22.65 Aligned_cols=57 Identities=14% Similarity=0.300 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHH
Q 029864 80 AFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMM 146 (186)
Q Consensus 80 ~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~ 146 (186)
.-++.|+++|..... . .+. .+..+ ...|..++.. ..|.. .+|.++..||.+++.-|.
T Consensus 50 a~~q~I~~~f~~~t~-~-LRq----qL~aK-r~ELnALl~~--~~pD~-~kI~aL~kEI~~Lr~kL~ 106 (143)
T PRK11546 50 AAWQKIHNDFYAQTS-A-LRQ----QLVSK-RYEYNALLTA--NPPDS-SKINAVAKEMENLRQSLD 106 (143)
T ss_pred HHHHHHHHHHHHHHH-H-HHH----HHHHH-HHHHHHHHcC--CCCCH-HHHHHHHHHHHHHHHHHH
Confidence 346677777766542 1 000 00000 2335555432 34554 789999999999887553
No 27
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.87 E-value=1.1e+02 Score=23.07 Aligned_cols=55 Identities=15% Similarity=0.234 Sum_probs=39.0
Q ss_pred HHccCCCCC---CeeEEEeCCeEEEEEE-eCCEEEEEEecCCCCcccHHHHHHHHHHHHHh
Q 029864 35 CLQKLPASN---NKFTYNCDAHTFNYLV-DNGYTYCVVADESSGRQIPMAFLERVKDEFVS 91 (186)
Q Consensus 35 il~ki~~~~---~k~~~~~~~~~f~~l~-~~~~~~~~vt~~~~~~~~af~fL~ei~~~f~~ 91 (186)
+..++.|.+ .....+.+.+..|+.. -.|+-|++|+++.. ..|=.+|..|...|..
T Consensus 110 I~~qlsp~~ksSGie~LetdtF~l~~~QTlTG~KFVvis~~~~--~~aD~lLrKiYelYsD 168 (199)
T KOG3369|consen 110 ISTQLSPEPKSSGIEVLETDTFTLHIFQTLTGTKFVVIAEPGT--QGADSLLRKIYELYSD 168 (199)
T ss_pred eeeccCCCCCCCceEEEEeccEEEEEEEccCCcEEEEEecCCc--hhHHHHHHHHHHHHHH
Confidence 445555542 3446677888877664 48999999999876 5677888888876643
No 28
>PF04510 DUF577: Family of unknown function (DUF577); InterPro: IPR007598 This is a family of Arabidopsis thaliana (Mouse-ear cress) proteins. Many of these members contain a repeated region.
Probab=49.03 E-value=60 Score=24.35 Aligned_cols=97 Identities=10% Similarity=0.161 Sum_probs=53.3
Q ss_pred EEEEEecCCCCcccHHHHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHH
Q 029864 64 TYCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKG 143 (186)
Q Consensus 64 ~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~ 143 (186)
+|.|++-+- -......||+.+..++.+...... . .....----|...++..++-- ..+...| -+.++-.
T Consensus 65 IF~~L~~~l-~~efl~~~~~~L~~~~~~~L~~p~-~-~d~~~W~LAl~~a~~~~Iql~-e~~~~~~-------~vk~L~~ 133 (174)
T PF04510_consen 65 IFICLPMPL-YGEFLIPFMENLLPEISKVLLPPE-E-VDVEDWVLALTGAVCMAIQLL-ESSMRVD-------LVKELLP 133 (174)
T ss_pred HHHhCCchh-hhhHHHHHHHHHHHHHHHHcCCch-h-ccHHHHHHHHHHHHHHHHHHh-ccccHHH-------HHHHHHH
Confidence 355555333 455666788888888877664221 0 000000011223333333332 2222112 2345556
Q ss_pred HHHHhHHHHHHhhhhhHHHHHhhHHHHH
Q 029864 144 VMMENIEKVLDRGEKIELLVDKTENLHQ 171 (186)
Q Consensus 144 im~~ni~~il~Rge~l~~L~~ks~~L~~ 171 (186)
+|.+.+.++++||...+-+..-=+++..
T Consensus 134 ~mv~Sv~elV~~g~E~~~l~rgl~~~e~ 161 (174)
T PF04510_consen 134 KMVKSVKELVERGMEVGFLRRGLRDFES 161 (174)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence 6999999999999998888777666643
No 29
>PF12277 DUF3618: Protein of unknown function (DUF3618); InterPro: IPR022062 This domain family is found in bacteria, and is approximately 50 amino acids in length.
Probab=48.25 E-value=48 Score=19.15 Aligned_cols=27 Identities=7% Similarity=0.276 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHhhh
Q 029864 131 LAKVKAQVSEVKGVMMENIEKVLDRGE 157 (186)
Q Consensus 131 l~~i~~~l~ev~~im~~ni~~il~Rge 157 (186)
...|+.+|+.++.-|..+++.+-.|=.
T Consensus 5 ~~~ie~dIe~tR~~La~tvd~L~~r~~ 31 (49)
T PF12277_consen 5 PDEIERDIERTRAELAETVDELAARLS 31 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 567999999999999999998887754
No 30
>PF05527 DUF758: Domain of unknown function (DUF758) ; InterPro: IPR008477 This is a family of eukaryotic proteins with unknown function, which are induced by tumour necrosis factor.; PDB: 3F4M_A.
Probab=48.01 E-value=76 Score=24.11 Aligned_cols=78 Identities=15% Similarity=0.282 Sum_probs=45.8
Q ss_pred cCCCCcccHHHHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhH
Q 029864 70 DESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENI 149 (186)
Q Consensus 70 ~~~~~~~~af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni 149 (186)
+-+|.+..--..|.|.++...+... +..+|.+ ..-|+....+| .+|+=.+.+-.-+.+..+.-.-+.+-+
T Consensus 108 ~fTfD~~~L~~~L~ec~~~L~~lv~----~HLT~KS-----~~Ri~~vF~~f-~~~efL~~lf~~~~~~~~~L~~i~~~L 177 (186)
T PF05527_consen 108 DFTFDRNYLSKLLKECRDLLHQLVE----PHLTPKS-----HGRIDHVFNFF-SDPEFLDALFSPDEEYRDHLGKICDGL 177 (186)
T ss_dssp TS---HHHHHHHHHHHHHHHHHHHT----TTS-HHH-----HHHHHHHHHHH-T-HHHHHHHTSG--GGHHHHHHHHHHH
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHH----HhCChhh-----HHHHHHHHHhh-CChHHHHHHhCcccchHHHHHHHHHHH
Confidence 3444555556666666666655543 1222222 24566677777 777655666555667777888888999
Q ss_pred HHHHHhhh
Q 029864 150 EKVLDRGE 157 (186)
Q Consensus 150 ~~il~Rge 157 (186)
+++|++|.
T Consensus 178 nklld~g~ 185 (186)
T PF05527_consen 178 NKLLDEGS 185 (186)
T ss_dssp HHHHHTT-
T ss_pred HHHHhCCC
Confidence 99999985
No 31
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=47.16 E-value=80 Score=20.69 Aligned_cols=38 Identities=13% Similarity=0.294 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhH
Q 029864 134 VKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVS 174 (186)
Q Consensus 134 i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~ 174 (186)
+-+.|..++..|.+.+++- ...++.|.+.|+.|.....
T Consensus 6 vT~~L~rt~~~m~~ev~~s---~~t~~~L~~Ss~~L~~~~~ 43 (92)
T PF03908_consen 6 VTESLRRTRQMMAQEVERS---ELTLQTLEESSATLRSTND 43 (92)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHhHHHHHHHHH
Confidence 3444555555555554433 3345555555555555444
No 32
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.96 E-value=82 Score=24.17 Aligned_cols=22 Identities=18% Similarity=0.259 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHhHHHHHHhhh
Q 029864 136 AQVSEVKGVMMENIEKVLDRGE 157 (186)
Q Consensus 136 ~~l~ev~~im~~ni~~il~Rge 157 (186)
..++.+.+.|.++||..|+..+
T Consensus 133 e~Mdm~~Emm~daIDdal~~~e 154 (224)
T KOG3230|consen 133 EIMDMKEEMMDDAIDDALGDDE 154 (224)
T ss_pred HHHHHHHHHHHHHHHHhhcccc
Confidence 4567788999999999996443
No 33
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=45.83 E-value=50 Score=19.73 Aligned_cols=40 Identities=13% Similarity=0.292 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhH
Q 029864 132 AKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVS 174 (186)
Q Consensus 132 ~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~ 174 (186)
.++|.+.+.+-+-+..=|| +=|.|||+|+..-.+|..+|.
T Consensus 13 ~qmq~kFq~mS~~I~~riD---eM~~RIDdLE~si~dl~~qag 52 (54)
T PF06825_consen 13 QQMQDKFQTMSDQILGRID---EMSSRIDDLEKSIADLMTQAG 52 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHH---HHHHHHHCCHHHH--------
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHhhHHHHHHHHHHHHHhcC
Confidence 4444444443333333333 236678888777777776654
No 34
>PHA03386 P10 fibrous body protein; Provisional
Probab=45.45 E-value=67 Score=21.42 Aligned_cols=16 Identities=13% Similarity=0.285 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 029864 129 SKLAKVKAQVSEVKGV 144 (186)
Q Consensus 129 dkl~~i~~~l~ev~~i 144 (186)
+|+..+|.+|++++.-
T Consensus 19 ~KVdaLQ~qV~dv~~n 34 (94)
T PHA03386 19 TKVDALQTQLNGLEED 34 (94)
T ss_pred hHHHHHHHHHHHHHhc
Confidence 7888888888888743
No 35
>COG3524 KpsE Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]
Probab=45.44 E-value=39 Score=27.82 Aligned_cols=17 Identities=41% Similarity=0.585 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 029864 129 SKLAKVKAQVSEVKGVM 145 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im 145 (186)
|.+..++.+|+.+|.+|
T Consensus 230 ~eL~~iqaqL~tvks~m 246 (372)
T COG3524 230 DELIVIQAQLDTVKSVM 246 (372)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 78899999999999999
No 36
>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=44.48 E-value=67 Score=19.03 Aligned_cols=44 Identities=16% Similarity=0.343 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQ 172 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~ 172 (186)
+.+..|...|.+++.++.+==+.|-+-|+-||.|.+..+.-...
T Consensus 4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~ 47 (63)
T PF05739_consen 4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANEN 47 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHH
Confidence 67888888999999888877777777888888888777655443
No 37
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.59 E-value=81 Score=26.65 Aligned_cols=43 Identities=21% Similarity=0.388 Sum_probs=33.2
Q ss_pred CeEEEEEEeCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhC
Q 029864 52 AHTFNYLVDNGYTYCVVADESSGRQIPMAFLERVKDEFVSKYG 94 (186)
Q Consensus 52 ~~~f~~l~~~~~~~~~vt~~~~~~~~af~fL~ei~~~f~~~~~ 94 (186)
.|.++-...+++.+++++..+.|-=.++.||.+|.+-|..-++
T Consensus 54 ~hylfsv~~~~i~~~~~st~e~pPL~~iefL~rv~dv~~eyFg 96 (418)
T KOG2740|consen 54 HHYLFSVYRDLIFFCAVSTVETPPLMVIEFLHRVVDVLLEYFG 96 (418)
T ss_pred ceeeeeeeccCcEEEEEEeccCCChhHHHHHHHHHHHHHHHhc
Confidence 3433334457777888888889988899999999999987665
No 38
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=40.97 E-value=81 Score=19.01 Aligned_cols=46 Identities=13% Similarity=0.283 Sum_probs=40.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhh
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQV 173 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s 173 (186)
.+.|.....-++|+.++-.+.++.+-.-++.|.....|-.++...-
T Consensus 7 ~~~L~~s~~~~~e~~~~g~~~l~~L~~Qre~L~~~~~kl~~i~~~l 52 (66)
T PF12352_consen 7 SDSLQRSHRMADETEEIGAATLEDLRSQREQLKRVRDKLDDIDSNL 52 (66)
T ss_dssp HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3788899999999999999999999999999999998888876653
No 39
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=39.34 E-value=80 Score=18.46 Aligned_cols=47 Identities=13% Similarity=0.381 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSV 175 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~ 175 (186)
+.+..+...+.+++++..+=-..+-+.|+.|+.+....+.....-+.
T Consensus 12 ~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~d~~~~~~~~ 58 (66)
T smart00397 12 EELEQLEKSIGELKQIFLDMGTELEEQGEQLDRIEDNVDDADVNLKK 58 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 78889999999999998876667777889999999888777666553
No 40
>PHA01811 hypothetical protein
Probab=38.66 E-value=41 Score=20.74 Aligned_cols=17 Identities=24% Similarity=0.354 Sum_probs=13.5
Q ss_pred eeEEEeCCeEEEEEEeC
Q 029864 45 KFTYNCDAHTFNYLVDN 61 (186)
Q Consensus 45 k~~~~~~~~~f~~l~~~ 61 (186)
-.+....||.+||+.++
T Consensus 6 ivtlrvkgyi~hyldd~ 22 (78)
T PHA01811 6 IVTLRVKGYILHYLDDD 22 (78)
T ss_pred EEEEEEeeEEEEEEcCc
Confidence 45677889999999764
No 41
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=35.68 E-value=1.6e+02 Score=20.97 Aligned_cols=43 Identities=16% Similarity=0.277 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHH
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQ 171 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~ 171 (186)
..+..-+..+.++|.-+..-=..+-.|.+.|..|-..+.....
T Consensus 79 ~~i~~sq~~i~~lK~~L~~ak~~L~~~~~eL~~L~~~s~~~~~ 121 (142)
T PF04048_consen 79 SSISESQERIRELKESLQEAKSLLGCRREELKELWQRSQEYKE 121 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 4455555555555555555555555566666666666655443
No 42
>PF08858 IDEAL: IDEAL domain; InterPro: IPR014957 This entry represents the C-terminal domain of Bacteriophage SPP1, p90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. his domain may also be referred to as the IDEAL domain, after the sequence of the most conserved region of the domain.; PDB: 3DO9_A.
Probab=34.83 E-value=79 Score=17.09 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=12.6
Q ss_pred HHHHHHHhHHHHHHhhhh
Q 029864 141 VKGVMMENIEKVLDRGEK 158 (186)
Q Consensus 141 v~~im~~ni~~il~Rge~ 158 (186)
-++-....||..|++|++
T Consensus 10 ~~~~L~~~ID~ALd~~D~ 27 (37)
T PF08858_consen 10 RKEQLLELIDEALDNRDK 27 (37)
T ss_dssp HHHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHHHHHHHHcCCH
Confidence 455667788888888875
No 43
>PLN03223 Polycystin cation channel protein; Provisional
Probab=34.81 E-value=1.2e+02 Score=30.42 Aligned_cols=44 Identities=16% Similarity=0.277 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHH
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQ 171 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~ 171 (186)
.|.+.+.++.|-+++.-+.++=-++++|.++|.++.+|--+|.+
T Consensus 1580 ~~~L~~s~erL~~~Q~~l~egQ~k~~~~Q~~la~~q~kl~~l~~ 1623 (1634)
T PLN03223 1580 VDQLQQSLERLAEVQRELAEGQVKVIEGQKQMAERQSRLSQLEN 1623 (1634)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHh
Confidence 47788888899999999999999999999999999998877765
No 44
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=34.12 E-value=92 Score=21.84 Aligned_cols=43 Identities=14% Similarity=0.304 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHH
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQ 171 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~ 171 (186)
..+..++.++.+...--.-.++-+=++-|.++.|..--.+|..
T Consensus 68 ~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~ 110 (120)
T PF12325_consen 68 KEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKE 110 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Confidence 5556666666666666656666666666666666665555543
No 45
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=32.95 E-value=1e+02 Score=17.68 Aligned_cols=47 Identities=21% Similarity=0.401 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSV 175 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~ 175 (186)
+.+..+...+.+++++..+==..+-+-|+.||.+....+.....-+.
T Consensus 6 ~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~~~~~~~~~~ 52 (60)
T cd00193 6 EELEQLEASIGELKQIFLDLGTEVEEQGELLDRIEDNVDNADVNVKR 52 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888888899988887755555556678888888877776665443
No 46
>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=31.59 E-value=1.4e+02 Score=19.12 Aligned_cols=50 Identities=22% Similarity=0.258 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFR 178 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k 178 (186)
+.+..++..+.+.-+-+.++=+++=+=.++-+.|.+.|+.....|+..-|
T Consensus 10 ~~v~~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~~a~~F~k~a~~l~r 59 (89)
T PF00957_consen 10 EQVEEVKNIMRENIDKLLERGEKLEELEDKTEELSDNAKQFKKNAKKLKR 59 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 56677777777777777666666666666788889999999999986533
No 47
>PF12579 DUF3755: Protein of unknown function (DUF3755); InterPro: IPR022228 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. There is a single completely conserved residue N that may be functionally important.
Probab=29.65 E-value=40 Score=18.20 Aligned_cols=19 Identities=11% Similarity=0.361 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 029864 128 ISKLAKVKAQVSEVKGVMM 146 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~ 146 (186)
.|+|..|..++.++-+||.
T Consensus 16 R~NI~~il~~m~~mpgim~ 34 (35)
T PF12579_consen 16 RDNILAILNDMNDMPGIMS 34 (35)
T ss_pred HHHHHHHHHHHHcchhhhc
Confidence 4788888888888888775
No 48
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=29.15 E-value=2.2e+02 Score=20.44 Aligned_cols=52 Identities=13% Similarity=0.274 Sum_probs=41.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHh-hhhhHHHHHhhHHHHHhhHhhhhh
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDR-GEKIELLVDKTENLHQQVSVSFRF 179 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~R-ge~l~~L~~ks~~L~~~s~~~~k~ 179 (186)
..+|..++.+++++...|.+.|+.+=++ ...+..|..+.+.|...-..|+..
T Consensus 9 l~ki~~l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l~~y~e~ 61 (149)
T PF07352_consen 9 LRKIAELQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLLQAYAEA 61 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688899999999999999999888665 456788888888888776665543
No 49
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=28.49 E-value=61 Score=26.33 Aligned_cols=38 Identities=21% Similarity=0.342 Sum_probs=16.5
Q ss_pred hHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHH
Q 029864 111 GPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIE 150 (186)
Q Consensus 111 ~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~ 150 (186)
+|.++++|+.+| .++.-|..+.++.-+|-++.|.+|=.
T Consensus 57 DpEmK~iid~~n--~eaikkyqqT~~~f~e~~e~~~k~~~ 94 (295)
T TIGR01478 57 DPELKEIIDKLN--EEAIKKYQETHDPYEQLQELVEKNRT 94 (295)
T ss_pred cHHHHHHHHHHh--HHHhhhhhhhcchHHHHHHHHHhcCC
Confidence 355555554441 12233444444444444444444433
No 50
>PF13228 DUF4037: Domain of unknown function (DUF4037)
Probab=28.37 E-value=1.9e+02 Score=19.40 Aligned_cols=64 Identities=22% Similarity=0.344 Sum_probs=45.7
Q ss_pred chhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhh
Q 029864 108 KEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVS 176 (186)
Q Consensus 108 ~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~ 176 (186)
..|++ +++.+..| |+. =....|...+..+.+...-|+.+.+.||+-+..-.-.++-+.+--...
T Consensus 23 G~~~~-~R~~l~~Y---P~d-l~~~~ia~~~~~~~qa~~~n~~ra~~R~D~~~~~~~~~~fv~~~~~l~ 86 (100)
T PF13228_consen 23 GEFTA-LRERLAYY---PED-LRLNKIARNLMLLAQAGQYNLGRALKRGDILAANHAISEFVRSYMDLL 86 (100)
T ss_pred chHHH-HHHHHHHC---hHH-HHHHHHHHHHHHhhhhhHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 45544 44444666 443 455677777777777778899999999999998888887776654443
No 51
>PF13040 DUF3901: Protein of unknown function (DUF3901)
Probab=27.50 E-value=1.2e+02 Score=16.89 Aligned_cols=25 Identities=24% Similarity=0.430 Sum_probs=16.0
Q ss_pred HHHHHhHHHHHHhhhhhHHHHHhhH
Q 029864 143 GVMMENIEKVLDRGEKIELLVDKTE 167 (186)
Q Consensus 143 ~im~~ni~~il~Rge~l~~L~~ks~ 167 (186)
+.+.+|-..+|...+.|+.|.++-+
T Consensus 10 eLV~eNK~ell~d~~~me~Ieerie 34 (40)
T PF13040_consen 10 ELVRENKQELLNDKEAMEKIEERIE 34 (40)
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 4556666667777666666666544
No 52
>COG5113 UFD2 Ubiquitin fusion degradation protein 2 [Posttranslational modification, protein turnover, chaperones]
Probab=26.68 E-value=1.3e+02 Score=27.63 Aligned_cols=39 Identities=18% Similarity=0.286 Sum_probs=26.4
Q ss_pred HhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhhhhcccCC
Q 029864 147 ENIEKVLDRGEKIELLVDKTENLHQQVSVSFRFCATNVCV 186 (186)
Q Consensus 147 ~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~~~~n~~~ 186 (186)
.||+.+|...-+=....+.-..|+..- ++-+++|+|+|.
T Consensus 672 hniqs~Lad~~s~sn~~e~~~elq~~l-a~a~rqA~~sc~ 710 (929)
T COG5113 672 HNIQSLLADAISNSNISERIGELQKSL-AFAKRQARNSCL 710 (929)
T ss_pred HhHHHHHHhhhccCchhhHHHHHHHHH-HHHHHhhcchhe
Confidence 366666665544445666666676664 478899999994
No 53
>KOG4117 consensus Heat shock factor binding protein [Transcription; Posttranslational modification, protein turnover, chaperones]
Probab=26.67 E-value=1.6e+02 Score=18.19 Aligned_cols=19 Identities=21% Similarity=0.298 Sum_probs=12.8
Q ss_pred hhhhHHHHHhhHHHHHhhH
Q 029864 156 GEKIELLVDKTENLHQQVS 174 (186)
Q Consensus 156 ge~l~~L~~ks~~L~~~s~ 174 (186)
+.++|+|+..-.+|-.++.
T Consensus 47 ~~riDDLEKnIaDLm~qag 65 (73)
T KOG4117|consen 47 SSRIDDLEKNIADLMTQAG 65 (73)
T ss_pred hhhhHHHHHHHHHHHHHcc
Confidence 4567777777777766654
No 54
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=26.35 E-value=1.6e+02 Score=18.81 Aligned_cols=39 Identities=15% Similarity=0.314 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHH
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQ 171 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~ 171 (186)
+|+..+|..+++++.-+ ..+=+=.+|||.+...-+.|..
T Consensus 18 ~KVdaLq~~V~~l~~~~----~~v~~l~~klDa~~~~l~~l~~ 56 (75)
T PF05531_consen 18 DKVDALQTQVDDLESNL----PDVTELNKKLDAQSAQLTTLNT 56 (75)
T ss_pred HHHHHHHHHHHHHHhcC----CchHHHHHHHHHHHHHHHHHHH
Confidence 78888999888877655 2222223344554444444443
No 55
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=25.92 E-value=1.1e+02 Score=22.25 Aligned_cols=51 Identities=18% Similarity=0.315 Sum_probs=28.5
Q ss_pred hhhHHHHHHHHhcc-CCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhH
Q 029864 109 EFGPKLKELMQYCV-DHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIE 160 (186)
Q Consensus 109 ~F~~~l~~~~~~y~-~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~ 160 (186)
.|.+.++++...-+ --|.- ..|..++.+++.-+.-..+-+..+|++|+.|=
T Consensus 31 ~fk~~l~~L~sTl~~i~P~i-~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV 82 (147)
T PF05659_consen 31 SFKSILKRLESTLESIIPII-KEIDKLNVELDRPRQEEIERLKELLEKGKELV 82 (147)
T ss_pred hhhhHHHHHHHHHHHhhhHH-HHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence 34444444432221 23443 66777777777775556666667777776543
No 56
>PF07897 DUF1675: Protein of unknown function (DUF1675); InterPro: IPR012463 The members of this family are sequences derived from hypothetical plant proteins of unknown function. One member of this family (Q9SFV5 from SWISSPROT) is annotated as a putative RNA-binding protein, but no evidence was found to support this.
Probab=25.57 E-value=75 Score=25.85 Aligned_cols=27 Identities=11% Similarity=0.065 Sum_probs=21.7
Q ss_pred EeCCeEEEEEEeCCEEEEEEecCCCCc
Q 029864 49 NCDAHTFNYLVDNGYTYCVVADESSGR 75 (186)
Q Consensus 49 ~~~~~~f~~l~~~~~~~~~vt~~~~~~ 75 (186)
+.+|++|-|-..+++.++|+|+-.+-.
T Consensus 237 ~i~g~ly~y~~~~~v~i~c~chg~~~~ 263 (284)
T PF07897_consen 237 RIEGFLYKYGKGEEVRIVCVCHGSFLS 263 (284)
T ss_pred eeeEEEEEecCCCeEEEEEEecCCCCC
Confidence 456888888667899999999987644
No 57
>PTZ00370 STEVOR; Provisional
Probab=25.25 E-value=78 Score=25.77 Aligned_cols=16 Identities=13% Similarity=0.266 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 029864 131 LAKVKAQVSEVKGVMM 146 (186)
Q Consensus 131 l~~i~~~l~ev~~im~ 146 (186)
..+++.++-|+=+-|.
T Consensus 104 k~klEKel~e~~ee~f 119 (296)
T PTZ00370 104 MSTLEKELLETYEEMF 119 (296)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 4444444444444443
No 58
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=24.17 E-value=1.1e+02 Score=19.15 Aligned_cols=6 Identities=17% Similarity=0.800 Sum_probs=2.3
Q ss_pred HHHHHH
Q 029864 113 KLKELM 118 (186)
Q Consensus 113 ~l~~~~ 118 (186)
.|+++|
T Consensus 10 ~L~~ii 15 (76)
T PF04155_consen 10 ELRKII 15 (76)
T ss_pred HHHHHH
Confidence 333333
No 59
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=23.97 E-value=2.1e+02 Score=18.43 Aligned_cols=20 Identities=20% Similarity=0.428 Sum_probs=9.3
Q ss_pred HhhhhhHHHHHhhHHHHHhh
Q 029864 154 DRGEKIELLVDKTENLHQQV 173 (186)
Q Consensus 154 ~Rge~l~~L~~ks~~L~~~s 173 (186)
..-++++.+.+..+++...-
T Consensus 65 ~k~~~v~~~~~~v~~~g~~v 84 (90)
T PF06103_consen 65 EKLEKVDPVFEAVADLGESV 84 (90)
T ss_pred HHHHhHHHHHHHHHHHHHHH
Confidence 34444455555444444443
No 60
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=23.85 E-value=2.1e+02 Score=21.55 Aligned_cols=58 Identities=22% Similarity=0.393 Sum_probs=34.1
Q ss_pred HHHHHHHHhcc---CCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhH
Q 029864 112 PKLKELMQYCV---DHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVS 174 (186)
Q Consensus 112 ~~l~~~~~~y~---~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~ 174 (186)
|.+.++++.|. ..|...+.+.+...+.+++-+.+.+++++.+++ .+.+...+|..+-.
T Consensus 136 p~~~~l~~kY~~l~~~~~~~~~~~~~l~e~~~~L~~l~~~f~~~~~~-----l~~~d~~dl~~ei~ 196 (199)
T PF10112_consen 136 PTAVKLLEKYAELESQPVKSEEIKQSLEEIEETLDTLNQAFEKDLDK-----LLEDDIMDLDTEIS 196 (199)
T ss_pred hHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhHHHHHHHHHH
Confidence 44556666662 234334666777777777777777777766543 44455555555433
No 61
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.53 E-value=2.9e+02 Score=19.86 Aligned_cols=54 Identities=13% Similarity=0.287 Sum_probs=39.1
Q ss_pred HHHHHccCCCCC---CeeEEEeCCeEEEEEE-eCCEEEEEEecCCCCcccHHHHHHHHHH
Q 029864 32 AYQCLQKLPASN---NKFTYNCDAHTFNYLV-DNGYTYCVVADESSGRQIPMAFLERVKD 87 (186)
Q Consensus 32 a~~il~ki~~~~---~k~~~~~~~~~f~~l~-~~~~~~~~vt~~~~~~~~af~fL~ei~~ 87 (186)
.+.+..|+.|++ +-.++..+.|..||.. ..|+=++.+||+.... .-..|..|.+
T Consensus 45 lkS~v~Kls~~d~k~~f~sy~Ts~YklhfyeTptglk~vl~Tdpk~~~--ir~vLq~IYs 102 (140)
T KOG3368|consen 45 LKSFVSKLSPGDVKDGFLSYKTSKYKLHFYETPTGLKFVLNTDPKAGS--IRDVLQYIYS 102 (140)
T ss_pred HHHHHHhcCCCCcccCeeEEeeceeEEEEEEcCCCcEEEEecCCCccc--HHHHHHHHHH
Confidence 466778888873 4557777889999885 4899999999987543 1245666666
No 62
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=23.41 E-value=1.2e+02 Score=18.09 Aligned_cols=47 Identities=17% Similarity=0.268 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHccCCCC-CCeeEEEeCCeEEEEEE--eCCEEEEEEecC
Q 029864 25 SGNFNSIAYQCLQKLPAS-NNKFTYNCDAHTFNYLV--DNGYTYCVVADE 71 (186)
Q Consensus 25 ~~~~~~~a~~il~ki~~~-~~k~~~~~~~~~f~~l~--~~~~~~~~vt~~ 71 (186)
..+|+.+...+-+++... .-+..|+.+|...+-+. .+|-.|+|+...
T Consensus 8 ~~s~e~lL~~it~~v~l~~gVr~lyt~~G~~V~~l~~l~dg~~yVa~g~e 57 (60)
T PF03607_consen 8 FRSFEQLLDEITEKVQLPSGVRKLYTLDGKRVKSLDELEDGGSYVASGRE 57 (60)
T ss_dssp HSSHHHHHHHHHHSSSSTTS-SEEEETTSSEESSGGGS-TTEEEEEESSS
T ss_pred hcCHHHHHHHHHhhcCCCcccceEECCCCCEeCCHHHHCCCCEEEEEcCC
Confidence 467888888888887754 24667888885554332 378889998554
No 63
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=22.65 E-value=1.4e+02 Score=21.98 Aligned_cols=32 Identities=25% Similarity=0.173 Sum_probs=24.3
Q ss_pred HHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHh
Q 029864 141 VKGVMMENIEKVLDRGEKIELLVDKTENLHQQ 172 (186)
Q Consensus 141 v~~im~~ni~~il~Rge~l~~L~~ks~~L~~~ 172 (186)
.++.|...-..-|=|.|-|+++++|-..|.+-
T Consensus 143 ~QEd~E~sAReeL~REELiEEIEQkVGGLREL 174 (180)
T PLN00180 143 RQEDIEESARAELWREELIEEIEQKVGGLREL 174 (180)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence 34445555667788999999999999888764
No 64
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=22.56 E-value=1.4e+02 Score=19.02 Aligned_cols=49 Identities=18% Similarity=0.279 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHccCCC--CCCeeEEEeCC-eEEEEEE--eCCEEEEEEecCC
Q 029864 24 FSGNFNSIAYQCLQKLPA--SNNKFTYNCDA-HTFNYLV--DNGYTYCVVADES 72 (186)
Q Consensus 24 ~~~~~~~~a~~il~ki~~--~~~k~~~~~~~-~~f~~l~--~~~~~~~~vt~~~ 72 (186)
.-.+|+.+...+-+++.+ +.-+..++.++ ....-+. ++|-.|+|...+.
T Consensus 24 ~~~sfd~lL~~lt~~l~l~~~~Vr~lyt~~g~~~v~~~~~l~~g~~yVa~g~e~ 77 (80)
T cd01617 24 RFKSFDALLDDLTEKVQLDPGAVRKLYTLDGGHRVSLLDELEDGGVYVASGREP 77 (80)
T ss_pred hhCCHHHHHHHHHHHhCCCCCcEEEEEcCCCCeEeccHHHhcCCCEEEEECCCC
Confidence 346899999888888875 44566778777 4444332 4788999986554
No 65
>COG0776 HimA Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]
Probab=22.47 E-value=89 Score=20.93 Aligned_cols=28 Identities=32% Similarity=0.588 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHhHHHHHHhhhhhHH
Q 029864 134 VKAQVSEVKGVMMENIEKVLDRGEKIEL 161 (186)
Q Consensus 134 i~~~l~ev~~im~~ni~~il~Rge~l~~ 161 (186)
-+.+.+++-+.+.+.|...|.+|++++.
T Consensus 18 ~k~~a~~~v~~~~~~i~~aL~~G~~V~l 45 (94)
T COG0776 18 SKKDAEEAVDAFLEEITEALAKGERVEL 45 (94)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 3457888888999999999999998753
No 66
>cd07634 BAR_GAP10-like The Bin/Amphiphysin/Rvs (BAR) domain of Rho GTPase activating protein 10-like. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This group is composed of uncharacterized proteins called Rho GTPase activating protein (GAP) 10-like. GAP10-like may be a GAP with activity towards RhoA and Cdc42. Similar to GRAF and GRAF2, it contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of the related proteins GRAF and OPHN1, directly interact with their Rho GAP domains and inhibit theiractivity. The autoinhibited proteins are capable of binding membranes and tubulating liposomes, showing that the membrane-tubulation and GAP-inhibitory functions of the BAR domain
Probab=22.44 E-value=3.5e+02 Score=20.92 Aligned_cols=73 Identities=15% Similarity=0.278 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHhhhCCCCCCCCCCCCccchhhHHHHHHHHhccCCc---------hhhHHHHHHHHHHHHHHHHHHHh
Q 029864 78 PMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHP---------EEISKLAKVKAQVSEVKGVMMEN 148 (186)
Q Consensus 78 af~fL~ei~~~f~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~y~~~~---------~~~dkl~~i~~~l~ev~~im~~n 148 (186)
+..||++|-........... .. ..-+..|...|.++-.++..++ ....+..+.-.+|++-+.+|.+|
T Consensus 14 t~~~ik~liK~c~~li~A~k--~~--~~a~~~Fa~sL~~f~~~~igd~~tDde~~i~~~l~~Fs~~l~el~~~~~~L~~~ 89 (207)
T cd07634 14 TNKFIKELIKDGSLLIGALR--NL--SMAVQKFSQSLQDFQFECIGDAETDDEISIAQSLKEFARLLIAVEEERRRLIQN 89 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HH--HHHHHHHHHHHHHHHhhccCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777666544332000 00 0113566667777665553333 23467777788888888888888
Q ss_pred HHHHHH
Q 029864 149 IEKVLD 154 (186)
Q Consensus 149 i~~il~ 154 (186)
++.+|-
T Consensus 90 ~~~~l~ 95 (207)
T cd07634 90 ANDVLI 95 (207)
T ss_pred HHHHHH
Confidence 876553
No 67
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=22.29 E-value=1.2e+02 Score=22.06 Aligned_cols=26 Identities=15% Similarity=0.355 Sum_probs=23.2
Q ss_pred EEEEEecCCCCcccHHHHHHHHHHHH
Q 029864 64 TYCVVADESSGRQIPMAFLERVKDEF 89 (186)
Q Consensus 64 ~~~~vt~~~~~~~~af~fL~ei~~~f 89 (186)
.+++||.++||.+....||..+.+..
T Consensus 25 ~~ilit~kG~P~~~tr~~l~~L~~~~ 50 (160)
T cd00223 25 NCILITGKGYPDRATRRFLRRLHEEL 50 (160)
T ss_pred CEEEEEcCCcCCHHHHHHHHHHHHhh
Confidence 46889999999999999999998775
No 68
>PF05542 DUF760: Protein of unknown function (DUF760); InterPro: IPR008479 This entry contains uncharacterised proteins.
Probab=22.06 E-value=85 Score=20.45 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=19.6
Q ss_pred HHHHHHHH-HHHHHHHHHHhHHHHHHhh
Q 029864 130 KLAKVKAQ-VSEVKGVMMENIEKVLDRG 156 (186)
Q Consensus 130 kl~~i~~~-l~ev~~im~~ni~~il~Rg 156 (186)
.+..+.+. =.||.++|.++|..+|..-
T Consensus 14 ~~~~l~~~~s~ev~e~m~~~v~~llG~l 41 (86)
T PF05542_consen 14 RIQQLSEPASPEVLEAMKQHVSGLLGNL 41 (86)
T ss_pred HHHHhhccCCHHHHHHHHHHHHHHHcCC
Confidence 44444443 3689999999999998765
No 69
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=21.91 E-value=4.2e+02 Score=21.16 Aligned_cols=53 Identities=8% Similarity=0.092 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHHHHhhHhhhhhhh
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQVSVSFRFCA 181 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L~~~s~~~~k~~~ 181 (186)
+.+.....+|.++-+-......-+.++.+.|+.|......++.....|+.+.+
T Consensus 66 ~~~a~aapdL~~~l~~~~~~s~tL~~~~~~L~~lL~~~~~~a~~~~~~l~~n~ 118 (267)
T PF11887_consen 66 DTYADAAPDLLDALDNLTTTSRTLVDQRQQLDALLLSATGLADTGTDFLADNR 118 (267)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 45555556666666666667778889999999999999999999988887754
No 70
>KOG2866 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.83 E-value=4.2e+02 Score=22.30 Aligned_cols=40 Identities=13% Similarity=0.187 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhH
Q 029864 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTE 167 (186)
Q Consensus 128 ~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~ 167 (186)
.++.+.|-+.++.....|..-++.+++.+..|+......+
T Consensus 88 ~~~~neI~~~v~~l~qe~~~~~e~i~da~~~l~~a~~~is 127 (349)
T KOG2866|consen 88 VDKENEILNEVENLHQEVRLPREDIADAENLLDLAASDIS 127 (349)
T ss_pred hhhHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHhHHH
Confidence 4788889999999999999999999999999887665443
No 71
>PRK00807 50S ribosomal protein L24e; Validated
Probab=21.81 E-value=1.4e+02 Score=17.54 Aligned_cols=22 Identities=9% Similarity=0.190 Sum_probs=15.4
Q ss_pred cCCCCCCeeEEEeCCeEEEEEE
Q 029864 38 KLPASNNKFTYNCDAHTFNYLV 59 (186)
Q Consensus 38 ki~~~~~k~~~~~~~~~f~~l~ 59 (186)
+|.|++.+..+..|+-.|+|+.
T Consensus 10 ~I~pg~G~~~vr~Dgkv~~Fcs 31 (52)
T PRK00807 10 EIEPGTGKMYVKKDGTILYFCS 31 (52)
T ss_pred eEcCCCCeEEEEeCCcEEEEeC
Confidence 4667766766777887777764
No 72
>PHA02604 rI.-1 hypothetical protein; Provisional
Probab=21.58 E-value=3e+02 Score=19.44 Aligned_cols=79 Identities=18% Similarity=0.277 Sum_probs=43.3
Q ss_pred CCCCcccHHHH----HHHHHHHHHhhhCC-CCC---CCCCCCCccchhhHHHHHHHHhccCCchhhHHHHHHHHHHHHHH
Q 029864 71 ESSGRQIPMAF----LERVKDEFVSKYGG-GKA---ATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVK 142 (186)
Q Consensus 71 ~~~~~~~af~f----L~ei~~~f~~~~~~-~~~---~~~~~~~l~~~F~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~ 142 (186)
.+|.+..|+.+ |.++-+.|...|-+ ..+ +..+..+. .++...|+.+++.- +.- -..-...+++-+||++
T Consensus 37 ~SYa~HkA~d~~y~~~~dLiD~F~E~yiG~~Gr~Y~P~l~~~s~-~d~~~~l~~~l~~a-~~i-~~~l~s~L~N~~DdI~ 113 (126)
T PHA02604 37 KSYARHKAYEFFYEEMPDLIDKFAEQYIGISGRKYKPSLPSASE-LDTIAFLDELLQEA-EEI-YKELPSALQSTLDDIT 113 (126)
T ss_pred hhHhhhhHHHHHHHHhhHHHHHHHHHHHhhcccCcCcccccccc-cCHHHHHHHHHHHH-HHH-HHHhhHHHHHHHHHHH
Confidence 56777777764 34566778777643 112 11111111 25556676655432 110 0122366888888888
Q ss_pred HHHHHhHHHH
Q 029864 143 GVMMENIEKV 152 (186)
Q Consensus 143 ~im~~ni~~i 152 (186)
....+.+-++
T Consensus 114 ~~~~qt~YkL 123 (126)
T PHA02604 114 GLCYQTKYKL 123 (126)
T ss_pred HHHHHHHHHH
Confidence 8887776543
No 73
>KOG3809 consensus Microtubule-binding protein MIP-T3 [Cytoskeleton]
Probab=20.69 E-value=2e+02 Score=25.01 Aligned_cols=35 Identities=14% Similarity=0.389 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHH
Q 029864 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLV 163 (186)
Q Consensus 129 dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~ 163 (186)
..|..||..|.|+++..-+-=.+||++.++|..++
T Consensus 546 ~~la~lq~~I~d~~e~i~~~r~~IL~Ne~rIqk~i 580 (583)
T KOG3809|consen 546 NILANLQKEINDTKEEISKARGRILNNEKRIQKFI 580 (583)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 67889999999999999999999999999998765
No 74
>PF03555 Flu_C_NS2: Influenza C non-structural protein (NS2); InterPro: IPR005188 The influenza C virus genome consists of seven single-stranded RNA segments. The shortest RNA segment encodes a 286 amino acid non-structural protein NS1 IPR005187 from INTERPRO as well as the NS2 protein. The NS2 protein is only about 60 amino acids in length and of unknown function.
Probab=20.57 E-value=1.2e+02 Score=17.47 Aligned_cols=33 Identities=18% Similarity=0.277 Sum_probs=22.1
Q ss_pred HHHHHhHHHHHHhhhhhHHHH-HhhHHHHHhhHh
Q 029864 143 GVMMENIEKVLDRGEKIELLV-DKTENLHQQVSV 175 (186)
Q Consensus 143 ~im~~ni~~il~Rge~l~~L~-~ks~~L~~~s~~ 175 (186)
+.|.=--.++|+|.|.||.-. .+-+.+....+.
T Consensus 5 nlmafvatkmlerqedldtctemqvekmkastka 38 (57)
T PF03555_consen 5 NLMAFVATKMLERQEDLDTCTEMQVEKMKASTKA 38 (57)
T ss_pred hHHHHHHHHHHHHHhhhhHhHHHHHHHHHHhHHH
Confidence 456666789999999998753 344555555443
No 75
>PHA03011 hypothetical protein; Provisional
Probab=20.35 E-value=2.9e+02 Score=18.77 Aligned_cols=56 Identities=16% Similarity=0.236 Sum_probs=40.6
Q ss_pred hHHHHHHHHhccCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHhhHHH
Q 029864 111 GPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENL 169 (186)
Q Consensus 111 ~~~l~~~~~~y~~~~~~~dkl~~i~~~l~ev~~im~~ni~~il~Rge~l~~L~~ks~~L 169 (186)
...+.++.-+|| .-.|...-+..++.+...+..+|.|.+.-=...+|.|.+.-.+|
T Consensus 63 ~e~ldeL~~qYN---~L~dEYn~i~Ne~k~~~~iIQdn~d~I~~LraeIDkLK~niaN~ 118 (120)
T PHA03011 63 IEILDELIAQYN---ELLDEYNLIENEIKDLEIIIQDNDDEIHFLRAEIDKLKENIANL 118 (120)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHhcc
Confidence 445666776662 22478888889999999999999998887777777776654443
No 76
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=20.21 E-value=1.4e+02 Score=18.65 Aligned_cols=27 Identities=26% Similarity=0.357 Sum_probs=20.6
Q ss_pred HHHHHHHHhHHHHHHhhhhhHHHHHhh
Q 029864 140 EVKGVMMENIEKVLDRGEKIELLVDKT 166 (186)
Q Consensus 140 ev~~im~~ni~~il~Rge~l~~L~~ks 166 (186)
..+..+...+..-++|-|.|.....++
T Consensus 47 ~~k~~~~~k~~eyl~RaE~LK~~l~~~ 73 (75)
T cd02678 47 KSKESIRAKCTEYLDRAEKLKEYLAKK 73 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 346777888888888888888777554
No 77
>PHA03395 p10 fibrous body protein; Provisional
Probab=20.14 E-value=2.4e+02 Score=18.64 Aligned_cols=15 Identities=27% Similarity=0.523 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHH
Q 029864 129 SKLAKVKAQVSEVKG 143 (186)
Q Consensus 129 dkl~~i~~~l~ev~~ 143 (186)
+|+..+|.++++++.
T Consensus 18 ~KVdalQ~~V~~l~~ 32 (87)
T PHA03395 18 DKVDALQAAVDDVRA 32 (87)
T ss_pred hHHHHHHHHHHHHHh
Confidence 778888888888753
Done!