Query 028123
Match_columns 213
No_of_seqs 136 out of 236
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:36:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028123.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028123hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0809 SNARE protein TLG2/Syn 100.0 4.4E-43 9.5E-48 309.2 16.9 173 2-194 1-176 (305)
2 PF00804 Syntaxin: Syntaxin; 99.6 1.2E-14 2.6E-19 108.3 10.9 93 77-170 2-102 (103)
3 COG5325 t-SNARE complex subuni 99.3 3.5E-11 7.7E-16 106.4 11.5 116 72-187 28-147 (283)
4 smart00503 SynN Syntaxin N-ter 99.2 2.6E-10 5.7E-15 87.4 13.2 109 77-186 3-117 (117)
5 cd00179 SynN Syntaxin N-termin 98.6 3.1E-06 6.7E-11 67.7 14.3 115 77-192 1-122 (151)
6 KOG0812 SNARE protein SED5/Syn 98.5 6.9E-06 1.5E-10 73.5 15.7 94 79-177 42-142 (311)
7 PF14523 Syntaxin_2: Syntaxin- 97.5 0.0076 1.6E-07 45.2 13.7 99 87-187 1-100 (102)
8 KOG0810 SNARE protein Syntaxin 96.9 0.042 9.1E-07 49.9 14.6 114 78-192 36-157 (297)
9 KOG0811 SNARE protein PEP12/VA 95.5 0.86 1.9E-05 40.9 15.1 110 75-186 14-123 (269)
10 KOG3208 SNARE protein GS28 [In 90.2 12 0.00026 32.9 13.1 112 75-189 2-119 (231)
11 COG5074 t-SNARE complex subuni 82.4 24 0.00051 31.6 10.9 110 79-192 22-134 (280)
12 KOG4460 Nuclear pore complex, 73.8 97 0.0021 31.1 13.2 34 151-185 662-695 (741)
13 cd07633 BAR_OPHN1 The Bin/Amph 68.2 21 0.00046 31.0 6.8 68 119-187 7-100 (207)
14 PF04912 Dynamitin: Dynamitin 67.8 16 0.00034 34.1 6.3 69 87-160 310-378 (388)
15 cd07602 BAR_RhoGAP_OPHN1-like 65.5 27 0.00057 30.3 6.9 67 119-186 7-99 (207)
16 PF05320 Pox_RNA_Pol_19: Poxvi 54.3 85 0.0018 26.3 7.6 73 80-168 51-125 (167)
17 PF00745 GlutR_dimer: Glutamyl 53.4 37 0.0008 24.8 5.1 66 79-145 16-82 (101)
18 cd07636 BAR_GRAF The Bin/Amphi 53.3 60 0.0013 28.1 6.9 68 119-186 7-99 (207)
19 PF01540 Lipoprotein_7: Adhesi 50.7 2E+02 0.0044 26.3 10.3 85 75-172 214-298 (353)
20 PF15066 CAGE1: Cancer-associa 50.2 78 0.0017 30.9 7.7 35 156-190 409-443 (527)
21 PF05227 CHASE3: CHASE3 domain 49.1 1.1E+02 0.0024 22.9 10.4 70 115-184 64-134 (138)
22 COG3388 Predicted transcriptio 47.7 53 0.0012 25.3 5.1 33 76-108 67-99 (101)
23 PF05524 PEP-utilisers_N: PEP- 47.3 83 0.0018 24.0 6.4 89 81-184 31-121 (123)
24 PF14644 DUF4456: Domain of un 46.0 1.9E+02 0.004 24.6 11.3 34 83-116 89-122 (208)
25 KOG1842 FYVE finger-containing 45.2 3.1E+02 0.0066 26.9 12.2 98 72-171 265-366 (505)
26 PF06631 DUF1154: Protein of u 43.8 59 0.0013 21.8 4.3 35 75-109 5-39 (47)
27 COG1315 Uncharacterized conser 43.7 1.4E+02 0.003 29.5 8.4 37 70-106 398-434 (543)
28 PF03930 Flp_N: Recombinase Fl 40.6 8.7 0.00019 28.7 -0.1 19 1-19 1-23 (82)
29 PF04849 HAP1_N: HAP1 N-termin 39.5 3.1E+02 0.0067 25.3 9.6 29 153-181 264-292 (306)
30 PRK13848 conjugal transfer pro 39.3 99 0.0021 23.7 5.4 60 117-179 6-65 (98)
31 cd07635 BAR_GRAF2 The Bin/Amph 38.9 1.3E+02 0.0029 26.0 6.9 27 119-145 7-33 (207)
32 PF03938 OmpH: Outer membrane 38.2 2E+02 0.0043 22.6 8.0 29 161-189 79-107 (158)
33 cd07634 BAR_GAP10-like The Bin 37.3 1.4E+02 0.0031 25.8 6.8 55 119-173 7-82 (207)
34 PF08069 Ribosomal_S13_N: Ribo 36.5 22 0.00049 25.0 1.4 19 75-93 20-39 (60)
35 PF15290 Syntaphilin: Golgi-lo 36.3 3.4E+02 0.0075 24.9 13.1 89 85-185 64-164 (305)
36 PF07820 TraC: TraC-like prote 35.7 1.4E+02 0.003 22.8 5.7 59 118-179 6-64 (92)
37 PF00804 Syntaxin: Syntaxin; 35.4 1.6E+02 0.0035 20.8 8.2 89 83-176 5-101 (103)
38 PF07426 Dynactin_p22: Dynacti 34.4 2E+02 0.0044 24.0 7.1 27 120-146 139-165 (174)
39 PF07851 TMPIT: TMPIT-like pro 34.2 3.9E+02 0.0084 24.9 10.8 16 163-178 73-88 (330)
40 PF09177 Syntaxin-6_N: Syntaxi 34.1 1.9E+02 0.0042 21.3 8.1 83 79-170 2-96 (97)
41 PF05405 Mt_ATP-synt_B: Mitoch 33.8 2.5E+02 0.0054 22.5 8.2 99 85-187 40-139 (163)
42 PF07544 Med9: RNA polymerase 32.2 2E+02 0.0043 20.9 7.3 46 85-132 24-70 (83)
43 cd07639 BAR_ACAP1 The Bin/Amph 31.4 3.4E+02 0.0073 23.3 9.3 24 84-107 4-27 (200)
44 PF14738 PaaSYMP: Solute carri 30.6 2.8E+02 0.006 22.9 7.2 38 150-187 117-154 (154)
45 cd07637 BAR_ACAP3 The Bin/Amph 29.7 2.6E+02 0.0057 23.8 7.2 24 120-143 8-31 (200)
46 smart00762 Cog4 COG4 transport 29.1 4E+02 0.0088 24.1 8.7 65 118-184 173-252 (324)
47 cd07603 BAR_ACAPs The Bin/Amph 28.7 1.9E+02 0.0041 24.6 6.1 25 119-143 7-31 (200)
48 PF15450 DUF4631: Domain of un 28.6 5.9E+02 0.013 25.3 10.7 87 80-170 403-505 (531)
49 COG1730 GIM5 Predicted prefold 27.2 3.5E+02 0.0076 22.1 7.4 50 84-144 89-138 (145)
50 KOG4438 Centromere-associated 26.6 6E+02 0.013 24.6 11.7 51 96-146 145-205 (446)
51 COG3524 KpsE Capsule polysacch 26.5 2.2E+02 0.0047 26.6 6.3 49 133-181 161-209 (372)
52 KOG1222 Kinesin associated pro 26.4 5.3E+02 0.012 25.9 9.3 115 84-203 225-349 (791)
53 PRK11546 zraP zinc resistance 25.5 3.8E+02 0.0082 22.0 10.9 49 134-187 70-118 (143)
54 PRK11546 zraP zinc resistance 25.2 3.5E+02 0.0077 22.1 6.8 22 117-138 85-106 (143)
55 PF14728 PHTB1_C: PTHB1 C-term 25.0 1.3E+02 0.0028 28.3 4.8 32 160-191 216-247 (377)
56 PF07200 Mod_r: Modifier of ru 24.8 3.5E+02 0.0075 21.3 8.6 30 80-109 22-51 (150)
57 PF03961 DUF342: Protein of un 24.8 3.8E+02 0.0082 25.3 8.0 37 71-107 322-359 (451)
58 KOG4673 Transcription factor T 23.6 4.6E+02 0.01 27.3 8.5 35 75-109 402-443 (961)
59 PF04100 Vps53_N: Vps53-like, 23.4 6.1E+02 0.013 23.7 9.3 21 85-105 28-48 (383)
60 cd09236 V_AnPalA_UmRIM20_like 23.3 3.9E+02 0.0085 24.5 7.6 34 74-107 54-89 (353)
61 PF06015 Chordopox_A30L: Chord 23.0 2E+02 0.0043 20.9 4.4 34 77-110 22-55 (71)
62 cd07601 BAR_APPL The Bin/Amphi 23.0 4.1E+02 0.0089 23.0 7.2 64 120-185 8-96 (215)
63 PF08868 YugN: YugN-like famil 22.9 65 0.0014 26.1 2.1 56 36-97 64-130 (132)
64 PF08657 DASH_Spc34: DASH comp 22.0 3.1E+02 0.0067 24.5 6.4 36 78-113 187-222 (259)
65 PF08655 DASH_Ask1: DASH compl 21.5 1.7E+02 0.0037 20.9 3.8 24 119-142 4-27 (66)
66 PF06112 Herpes_capsid: Gammah 21.5 96 0.0021 25.6 2.8 27 163-189 24-56 (147)
67 PF14523 Syntaxin_2: Syntaxin- 20.9 3.3E+02 0.0072 19.7 7.0 23 82-104 37-59 (102)
68 PRK10132 hypothetical protein; 20.7 4.1E+02 0.0088 20.6 6.2 49 117-165 8-56 (108)
69 PF10168 Nup88: Nuclear pore c 20.3 9.4E+02 0.02 24.6 13.1 55 122-176 601-664 (717)
No 1
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.4e-43 Score=309.17 Aligned_cols=173 Identities=50% Similarity=0.718 Sum_probs=161.7
Q ss_pred CccccchHHHHHHHHhccCCCCCCCCCCCCCCCCCCCCCceeecccccCCCCCCCCCCCCCCCCCCCCCccccCCCchHH
Q 028123 2 ATRNRTLIYKRYRDALKTVRVPTSTSPLQSSGKSSCSGPVIELVNSSLLNPNRNYAPLSTEDPGNSSRGAVTVGLPPAWV 81 (213)
Q Consensus 2 atRnrT~~F~~yR~~~~~~r~~~~~~~~~~~~~~~~~~~~ie~~~~~l~~~~~~~~~l~~~d~~~~~~~~~~~~lpP~Wv 81 (213)
||||||.+|+.||+.++|+|.+. |+.++.+|++||+ +++++.+..|.+.+++| ++||.||
T Consensus 1 atRnrT~lF~~~Rn~~~~~r~~~--------~~~~~~d~~~e~~-~~lv~~~~~~~~~~~~d-----------~lpP~wv 60 (305)
T KOG0809|consen 1 ATRNRTELFLLYRNNASHNRQPL--------GDRSGDDPVIEMA-TSLVNEAEEGKTVSDED-----------GLPPAWV 60 (305)
T ss_pred CcchHHHHHHHHHhhhhhhcccc--------ccccCcchhHHhH-hccccchhcCCcccccc-----------CCCCccc
Confidence 79999999999999999999875 2334589999999 88899899999999776 5899999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC---CchhHHHHHH
Q 028123 82 DVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAG---PSEDSNVRKN 158 (213)
Q Consensus 82 d~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~---~~~E~~i~kN 158 (213)
|.++||++.+.+++.+|.+|.++|+||++|+|+|..++|++||.+|++||++|++|++.|+.+.... ++.|..+++|
T Consensus 61 d~~~ev~~~l~rvrrk~~eLgk~~~Khl~PsF~Dk~ede~~IE~ltq~Itqll~~cqk~iq~~~a~~n~~~~~e~~~~~n 140 (305)
T KOG0809|consen 61 DVAEEVDYYLSRVRRKIDELGKAHAKHLRPSFSDKREDEHEIEELTQEITQLLQKCQKLIQRLSASLNQLSPSERLLRKN 140 (305)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999998854 7889999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCC
Q 028123 159 VQRSLATDLQNLSMELRKKQSTYLKRLRQQKEVHEE 194 (213)
Q Consensus 159 vq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~~~~ 194 (213)
++.+||.+||.+|.+||..|++||++|+.++++...
T Consensus 141 ~~~~la~~LQ~~s~~fR~~Qs~YLK~l~~~ee~~~~ 176 (305)
T KOG0809|consen 141 AQGYLALQLQTLSREFRGLQSKYLKRLRNREENSQE 176 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhcccc
Confidence 999999999999999999999999999999998643
No 2
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=99.60 E-value=1.2e-14 Score=108.33 Aligned_cols=93 Identities=30% Similarity=0.501 Sum_probs=84.4
Q ss_pred CchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--------C
Q 028123 77 PPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAA--------G 148 (213)
Q Consensus 77 pP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~--------~ 148 (213)
||.|++.+++|...|..|+.++.+|.+||.++|.+.+.| +..+.+|+.+|.+|+++|+.|+..|+.|... .
T Consensus 2 ~~~f~~~v~~i~~~i~~i~~~~~~l~~l~~~~l~~~~~d-~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~~~~~~~~~~ 80 (103)
T PF00804_consen 2 MPEFFDEVQEIREDIDKIKEKLNELRKLHKKILSSPDQD-SELKRELDELTDEIKQLFQKIKKRLKQLSKDNEDSEGEEP 80 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCC
Confidence 799999999999999999999999999999999987744 6778899999999999999999999999765 2
Q ss_pred CchhHHHHHHHHHHHHHHHHHH
Q 028123 149 PSEDSNVRKNVQRSLATDLQNL 170 (213)
Q Consensus 149 ~~~E~~i~kNvq~sLA~kLQ~L 170 (213)
+..+.++++|...+|+.+++++
T Consensus 81 ~~~~~ri~~nq~~~L~~kf~~~ 102 (103)
T PF00804_consen 81 SSNEVRIRKNQVQALSKKFQEV 102 (103)
T ss_dssp -SHHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHH
Confidence 5779999999999999999876
No 3
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=99.28 E-value=3.5e-11 Score=106.36 Aligned_cols=116 Identities=23% Similarity=0.273 Sum_probs=105.7
Q ss_pred cccCCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc----
Q 028123 72 VTVGLPPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAA---- 147 (213)
Q Consensus 72 ~~~~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~---- 147 (213)
....+||.|++..-+|+..+..++..+..|.+.++||++|.|.|..+.+.+|+.|+..|++.|.+|++.++.--..
T Consensus 28 e~~~l~p~~i~~~~~v~~~l~~vrr~~~~l~~~y~k~~~p~f~~k~~k~~ei~~L~~kv~~~l~~~~ki~~~~~~~~~s~ 107 (283)
T COG5325 28 EDDALTPTFILSAASVDQELTAVRRSISRLGKVYAKHTEPSFSDKSEKEDEIDELSKKVNQDLQRCEKILKTKYKNLQSS 107 (283)
T ss_pred hhhccchhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457999999999999999999999999999999999999999999999999999999999999999988875432
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 148 GPSEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQ 187 (213)
Q Consensus 148 ~~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~ 187 (213)
..-.+..+-.|...+.++++|..+.+||+.|..|+++++.
T Consensus 108 ~~~~kll~~~nt~~~~~~~iq~~~aq~r~~~~~~~k~l~~ 147 (283)
T COG5325 108 FLQSKLLRDLNTECMEGQRIQQKSAQFRKYQVLQAKFLRN 147 (283)
T ss_pred HHHHHHhhcccchhhhHHHHHHHHHHHHHHHHHHhHHHHh
Confidence 1236778889999999999999999999999999999954
No 4
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=99.24 E-value=2.6e-10 Score=87.39 Aligned_cols=109 Identities=26% Similarity=0.402 Sum_probs=90.5
Q ss_pred CchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC------Cc
Q 028123 77 PPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAG------PS 150 (213)
Q Consensus 77 pP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~------~~ 150 (213)
+|.|++.+++|...|..|+..+.+|.++|.+.+.+.+.+ ......++.+..+|..+.+.|...|+.+.... ++
T Consensus 3 ~~~F~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~-~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~~~~~~~~~~~ 81 (117)
T smart00503 3 LDEFFEKVEEIRANIQKISQNVAELQKLHEELLTPPDAD-KELREKLERLIDDIKRLAKEIRAKLKELEKENLENRASGS 81 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhcccCC
Confidence 678999999999999999999999999999999876632 33345677777777777777777777776531 24
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 151 EDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLR 186 (213)
Q Consensus 151 ~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk 186 (213)
.+..+++|+..+|+.+++++...|+..|+.|..+.|
T Consensus 82 ~~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k 117 (117)
T smart00503 82 ASDRTRKAQTEKLRKKFKEVMNEFQRLQRKYREREK 117 (117)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 578999999999999999999999999999987653
No 5
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=98.57 E-value=3.1e-06 Score=67.68 Aligned_cols=115 Identities=23% Similarity=0.369 Sum_probs=98.7
Q ss_pred CchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC-------C
Q 028123 77 PPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAG-------P 149 (213)
Q Consensus 77 pP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~-------~ 149 (213)
.|.|.+.+++|...|..|...+..|.++|..-+-. -+.....-..++.+..+|..+++.+...|+.|.... .
T Consensus 1 ~~~F~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~-~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~ 79 (151)
T cd00179 1 LEEFFEEVEEIRGNIDKISEDVEELQKLHSQLLTA-PDADPELKQELESLVQEIKKLAKEIKGKLKELEESNEQNEALNG 79 (151)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 37799999999999999999999999999875532 222445567899999999999999999999987632 2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 028123 150 SEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQKEVH 192 (213)
Q Consensus 150 ~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~~ 192 (213)
..+.++++|....|..+++++-..|...|..|-.+.|.+-++.
T Consensus 80 s~~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k~~i~Rq 122 (151)
T cd00179 80 SSVDRIRKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQRQ 122 (151)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478899999999999999999999999999999998887765
No 6
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.50 E-value=6.9e-06 Score=73.54 Aligned_cols=94 Identities=22% Similarity=0.314 Sum_probs=80.7
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----cC--C-ch
Q 028123 79 AWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSA----AG--P-SE 151 (213)
Q Consensus 79 ~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~----~~--~-~~ 151 (213)
.|...+..|...|+..-.||++|..|.++ ++-|+|... ||.+||+-|.+.+......|-.+.. .+ + .+
T Consensus 42 eF~~~A~~Ig~~is~T~~kl~kLa~lAKr--ks~f~Dr~V---eI~eLT~iikqdi~sln~~i~~Lqei~~~~gn~s~~~ 116 (311)
T KOG0812|consen 42 EFNKKASRIGKEISQTGAKLEKLAQLAKR--KSLFDDRPV---EIQELTFIIKQDITSLNSQIAQLQEIVKANGNLSNKQ 116 (311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh--cccccCcch---hhHHHHHHHhcchHHHHHHHHHHHHHHHHhccccchH
Confidence 68999999999999999999999999999 889999987 7999999999998887776665543 12 2 22
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 152 DSNVRKNVQRSLATDLQNLSMELRKK 177 (213)
Q Consensus 152 E~~i~kNvq~sLA~kLQ~LS~~FRk~ 177 (213)
-..+-+||+-.|-++|.++|..|...
T Consensus 117 ~~~Hs~~vV~~Lqs~la~is~~fk~V 142 (311)
T KOG0812|consen 117 LVQHSKNVVVSLQSKLANISKDFKDV 142 (311)
T ss_pred hhhhhHHHHHHHHHHHHhhhhhHHHH
Confidence 36788999999999999999999874
No 7
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=97.49 E-value=0.0076 Score=45.17 Aligned_cols=99 Identities=19% Similarity=0.327 Sum_probs=78.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-CCchhHHHHHHHHHHHHH
Q 028123 87 IATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAA-GPSEDSNVRKNVQRSLAT 165 (213)
Q Consensus 87 i~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~-~~~~E~~i~kNvq~sLA~ 165 (213)
|...|..|...+..|.++-.. +-+-.|..+.-..|..+...+..+++.....|+.+... .......-.+-.+-.|+.
T Consensus 1 is~~l~~in~~v~~l~k~~~~--lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~ 78 (102)
T PF14523_consen 1 ISSNLFKINQNVSQLEKLVNQ--LGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSR 78 (102)
T ss_dssp -HHHHHHHHHHHHHHHHHHHH--H-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHH--hCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence 345677888888888887766 34668888888899999999999999999999999876 455667777888889999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 028123 166 DLQNLSMELRKKQSTYLKRLRQ 187 (213)
Q Consensus 166 kLQ~LS~~FRk~Q~~YL~~Lk~ 187 (213)
.++.+...|.+.|+.|..+-+.
T Consensus 79 df~~~l~~fq~~q~~~~~~~k~ 100 (102)
T PF14523_consen 79 DFKEALQEFQKAQRRYAEKEKQ 100 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999988654
No 8
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.91 E-value=0.042 Score=49.89 Aligned_cols=114 Identities=23% Similarity=0.370 Sum_probs=89.9
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--------CC
Q 028123 78 PAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAA--------GP 149 (213)
Q Consensus 78 P~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~--------~~ 149 (213)
-.|+..+++|...+..+...+++|.++|.+-|. .-...+..-++++.+..+|.+.=+..+.+|+.+... +.
T Consensus 36 ~~Ff~~ve~Ir~~i~~l~~~~~~l~~~hs~~l~-~~~~~~~~k~~l~~~~~~~~~~a~~Ik~kL~~~e~~~~~~~~~~~~ 114 (297)
T KOG0810|consen 36 EEFFEDVEEIRDDIEKLDEDVEKLQKLHSKSLH-SPNADKELKRKLESLVDEIRRRARKIKTKLKALEKENEADETQNRS 114 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhc-cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCC
Confidence 459999999999999999999999999966553 222233345577777777777777777777777552 24
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 028123 150 SEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQKEVH 192 (213)
Q Consensus 150 ~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~~ 192 (213)
+....++++--..+..+|.++-..|+..|.+|-.+.+.+-.+.
T Consensus 115 ~~~~r~rrtq~~~~~kkf~~~M~~f~~~~~~~r~~~k~~i~Rq 157 (297)
T KOG0810|consen 115 SAGLRTRRTQTSALSKKLKELMNEFNRTQSKYREEYKERIQRQ 157 (297)
T ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999999999999999999999999988877665543
No 9
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.51 E-value=0.86 Score=40.93 Aligned_cols=110 Identities=18% Similarity=0.215 Sum_probs=98.9
Q ss_pred CCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHH
Q 028123 75 GLPPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSN 154 (213)
Q Consensus 75 ~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~ 154 (213)
.-|+.+-....+|...+..|......|.+.+.. +-++.|..++-..++.....+.++.+.....|+.+......++.+
T Consensus 14 ~~~~~~~~l~~~i~~~i~~i~~~~~~l~r~~~~--lgt~~ds~~lr~kl~~~~~~~~~~vkdt~~~lke~~~~~~~~~~~ 91 (269)
T KOG0811|consen 14 EEPFDFQQLAQEIAANIQRINQQVLSLLRFLNS--LGTKSDSPELRDKLHQERLNANQLVKDTSALLKEIDTLRLESDLR 91 (269)
T ss_pred CCCCcHhHHHHHHHHHHHHHhHHHHHHHHHHHH--cCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHH
Confidence 357788999999999999999999999999998 568889888888899999999999999999999998866677889
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 155 VRKNVQRSLATDLQNLSMELRKKQSTYLKRLR 186 (213)
Q Consensus 155 i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk 186 (213)
..+.+...|+......-..|-+.|+.--...+
T Consensus 92 ~~k~~~~kL~~ef~~~l~efq~vQrk~ae~ek 123 (269)
T KOG0811|consen 92 QLKIQLDKLVDEFSAALKEFQKVQRKSAEREK 123 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhc
Confidence 99999999999999999999999998877765
No 10
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.21 E-value=12 Score=32.91 Aligned_cols=112 Identities=17% Similarity=0.308 Sum_probs=79.8
Q ss_pred CCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCh-H---HHHHHHHHHHHHHHHHHHHHHHHHHhhh--cC
Q 028123 75 GLPPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGK-E---DQHAIESLTQEITNILKRSEKRLQQLSA--AG 148 (213)
Q Consensus 75 ~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~-~---ee~eIE~lT~eIt~lf~~~e~~Ik~i~~--~~ 148 (213)
+.||.|...=-++...-..+..||....++-+. -.-+|++++ . .++.-..++.+|..++.+.......+.. ..
T Consensus 2 ~~~s~we~LRkqArslE~~ld~kL~syskl~as-~~gg~~~~~s~~~~~~~s~ks~~~eie~LLeql~~vndsm~~~~~s 80 (231)
T KOG3208|consen 2 GSSSSWEALRKQARSLENQLDSKLVSYSKLGAS-THGGYDIDTSPLSGSDRSFKSLENEIEGLLEQLQDVNDSMNDCASS 80 (231)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHHHhcc-cCCCCCCCcccccCcCcchhhhHHHHHHHHHHHHHHHHHHHhhccC
Confidence 368999999999999999999999999999887 335676532 1 2345677778888888887777777765 22
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 149 PSEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQK 189 (213)
Q Consensus 149 ~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~ 189 (213)
+.....+-.-++++ -..||+..++||+.=.+|.. ++.++
T Consensus 81 ~a~~aa~~htL~RH-rEILqdy~qef~rir~n~~a-~~e~~ 119 (231)
T KOG3208|consen 81 PANSAAVMHTLQRH-REILQDYTQEFRRIRSNIDA-KRERE 119 (231)
T ss_pred CCCcHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 33333333444443 46799999999999999544 44433
No 11
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=82.43 E-value=24 Score=31.58 Aligned_cols=110 Identities=14% Similarity=0.279 Sum_probs=81.3
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC-Cc-hhHHH
Q 028123 79 AWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDG-KEDQHAIESLTQEITNILKRSEKRLQQLSAAG-PS-EDSNV 155 (213)
Q Consensus 79 ~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~-~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~-~~-~E~~i 155 (213)
.|......++..++.+...+.+...+|+.-|.-.|... ...-+.++.-+.+.+.|=......|+.....+ .. .-..=
T Consensus 22 ~f~~~i~si~~n~s~~e~~i~qi~~~h~d~L~Ev~e~~~~~~~~~ldnf~s~t~~Lq~~~k~di~~~e~~~ihl~~k~aQ 101 (280)
T COG5074 22 TFMNKILSINKNLSVYEKEINQIDNLHKDLLTEVFEEQSRKLRRSLDNFSSQTTDLQRNLKKDIKSAERDGIHLANKQAQ 101 (280)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhcccchhhHHHH
Confidence 35567888999999999999999999999886666653 34466788888888888888888888877643 11 11222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 028123 156 RKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQKEVH 192 (213)
Q Consensus 156 ~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~~ 192 (213)
.+|+++ ++-++-..||..|++|=..-+.+--++
T Consensus 102 ae~~r~----Kf~~~I~~yr~i~~~yree~~e~~rrQ 134 (280)
T COG5074 102 AENVRQ----KFLKLIQDYRIIDSNYREEEKEQARRQ 134 (280)
T ss_pred HHHHHH----HHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence 455544 566777889999999987766655443
No 12
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=73.81 E-value=97 Score=31.09 Aligned_cols=34 Identities=15% Similarity=0.329 Sum_probs=24.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 151 EDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRL 185 (213)
Q Consensus 151 ~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~L 185 (213)
.|....--+.++|++.|-.+.+.|.| |+.-+.+.
T Consensus 662 ~Elq~~~~~~~~L~~~iET~~~~~~K-Q~~H~~~v 695 (741)
T KOG4460|consen 662 KELQLIPDQLRHLGNAIETVTMKKDK-QQQHMEKV 695 (741)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 46644455578999999999999999 55444443
No 13
>cd07633 BAR_OPHN1 The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin-1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Oligophrenin-1 (OPHN1) is a GTPase activating protein (GAP) with activity towards RhoA, Rac, and Cdc42, that is expressed in developing spinal cord and in adult brain areas with high plasticity. It plays a role in regulating the actin cystoskeleton as well as morphology changes in axons and dendrites, and may also function in modulating neuronal connectivity. Mutations in the OPHN1 gene causes X-linked mental retardation associated with cerebellar hypoplasia, lateral ventricle enlargement and epilepsy. OPHN1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=68.17 E-value=21 Score=30.96 Aligned_cols=68 Identities=16% Similarity=0.311 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc-------------------C---CchhHHHHHHHHHHHHHHHHHHH----H
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQLSAA-------------------G---PSEDSNVRKNVQRSLATDLQNLS----M 172 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~-------------------~---~~~E~~i~kNvq~sLA~kLQ~LS----~ 172 (213)
-|.+++.+...|.++++.|..+|...... | +++|..|. |.-+..+.-|+++- .
T Consensus 7 hE~ele~~~~~IkkliK~~~~li~a~K~~s~A~r~Fa~~L~df~f~~igd~~tdde~~I~-~sL~~F~~~L~~ie~~r~~ 85 (207)
T cd07633 7 YEQELERTNKFIKDVIKDGNALISAIKEYSSAVQKFSQTLQSFQFDFIGDTLTDDEINIA-ESFKEFAELLQEVEEERMM 85 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccchHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999888764320 1 34455554 55555777777775 4
Q ss_pred HHHHHHHHHHHHHHh
Q 028123 173 ELRKKQSTYLKRLRQ 187 (213)
Q Consensus 173 ~FRk~Q~~YL~~Lk~ 187 (213)
-|...|...++.|+.
T Consensus 86 l~d~aq~s~~~~L~~ 100 (207)
T cd07633 86 MVQNASDLLIKPLEN 100 (207)
T ss_pred HHHHHHHHHHHHHHH
Confidence 566778877776653
No 14
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=67.77 E-value=16 Score=34.05 Aligned_cols=69 Identities=20% Similarity=0.287 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHH
Q 028123 87 IATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSNVRKNVQ 160 (213)
Q Consensus 87 i~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~i~kNvq 160 (213)
+...|-.|-.+|..|..||.... .|...-. ++|....+|...++.++..|..+...-......|..||+
T Consensus 310 ~~~~lP~lv~RL~tL~~lH~~a~--~~~~~l~---~le~~q~~l~~~l~~~~~~L~~ve~~~~~N~~~i~~n~~ 378 (388)
T PF04912_consen 310 YAPSLPSLVERLKTLKSLHEEAA--EFSQTLS---ELESQQSDLQSQLKKWEELLNKVEEKFKENMETIEKNVK 378 (388)
T ss_pred HhhhhhHHHHHHHHHHHHHHHHH--HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446677788999999998866 5554332 678888888889999999988887653333444444443
No 15
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. 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 OPHN1
Probab=65.52 E-value=27 Score=30.27 Aligned_cols=67 Identities=10% Similarity=0.291 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc-------------------C---CchhHHHHHHHHHHHHHHHHHHHHH---
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQLSAA-------------------G---PSEDSNVRKNVQRSLATDLQNLSME--- 173 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~-------------------~---~~~E~~i~kNvq~sLA~kLQ~LS~~--- 173 (213)
-|.+++.+...|.++++.|...|...... + +++|..| .+.-...+.-|+++...
T Consensus 7 ~E~ele~l~~~ikkLiK~ck~~i~a~k~~~~a~~~F~~~L~~f~~~~~g~~~tDDe~~i-~~~L~kF~~~l~ei~~~r~~ 85 (207)
T cd07602 7 HEAELERTNKAIKELIKECKNLISATKNLSKAQRSFAQTLQNFKFECIGETQTDDEIEI-AESLKEFGRLIETVEDERDR 85 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcCcccHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999887764321 1 2334444 47777788888888654
Q ss_pred -HHHHHHHHHHHHH
Q 028123 174 -LRKKQSTYLKRLR 186 (213)
Q Consensus 174 -FRk~Q~~YL~~Lk 186 (213)
+-..|...+..|.
T Consensus 86 L~~q~~~~l~~pL~ 99 (207)
T cd07602 86 MLENAEEQLIEPLE 99 (207)
T ss_pred HHHHHHHHHHHHHH
Confidence 3345555554443
No 16
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=54.31 E-value=85 Score=26.27 Aligned_cols=73 Identities=15% Similarity=0.214 Sum_probs=54.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--cCCchhHHHHH
Q 028123 80 WVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSA--AGPSEDSNVRK 157 (213)
Q Consensus 80 Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~--~~~~~E~~i~k 157 (213)
-....++......+|..|+..+++-+.+++ --.|||..+.+++..||+-.- -..-.|..+++
T Consensus 51 ~s~~~~~~~~~~k~is~kI~~iK~RYTRRi----------------SLfEiTGIiaESyNLLqRGRlPLv~dlsdeT~k~ 114 (167)
T PF05320_consen 51 ASENIEDQTSVPKQISEKISAIKKRYTRRI----------------SLFEITGIIAESYNLLQRGRLPLVSDLSDETLKD 114 (167)
T ss_pred hhcCcccccchHHHHHHHHHHHHHHHHhhh----------------hHHHHHHHHHHHHHHHHccccccccccchHHHHH
Confidence 334455666788899999999999999976 236889999999999997543 23455777788
Q ss_pred HHHHHHHHHHH
Q 028123 158 NVQRSLATDLQ 168 (213)
Q Consensus 158 Nvq~sLA~kLQ 168 (213)
|+-.-...+|.
T Consensus 115 n~L~vvi~EIe 125 (167)
T PF05320_consen 115 NILHVVIKEIE 125 (167)
T ss_pred hHHHHHHHHHh
Confidence 88766655553
No 17
>PF00745 GlutR_dimer: Glutamyl-tRNAGlu reductase, dimerisation domain; InterPro: IPR015896 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents the helical dimerisation domain of glutamyl-tRNA reductase (1.2.1.70 from EC) []. This enzyme reduces glutamyl-tRNA to glutamate-1-semialdehyde during the first stage of tetrapyrrole biosynthesis by the C5 pathway [, ]. The enzyme requires NADPH as a cofactor.; GO: 0008883 glutamyl-tRNA reductase activity, 0050661 NADP binding, 0033014 tetrapyrrole biosynthetic process, 0055114 oxidation-reduction process; PDB: 1GPJ_A.
Probab=53.43 E-value=37 Score=24.77 Aligned_cols=66 Identities=18% Similarity=0.361 Sum_probs=35.4
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHH-HHHHHHHHHhh
Q 028123 79 AWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNIL-KRSEKRLQQLS 145 (213)
Q Consensus 79 ~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf-~~~e~~Ik~i~ 145 (213)
.|.... ++...|..++.+++.+...--.++....+.+..++..|+.++..+++.+ +.-=..|+...
T Consensus 16 ~w~~~~-~~~p~I~~l~~~~e~i~~~el~~~~~~l~~~~~~~~~i~~~~~~~~~Kllh~p~~~Lr~~a 82 (101)
T PF00745_consen 16 RWLKSR-KVDPVIKALREKAEEIRDEELERALKKLDLDEDDEEVIEKLTRSLVNKLLHPPISNLREAA 82 (101)
T ss_dssp HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHS-S----------TTHHHHHHHHHHHHHHHHHHSS-
T ss_pred HHHHhc-chHHHHHHHHHHHHHHHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 377776 4888899999988877666654443222233344567888888877765 33333344433
No 18
>cd07636 BAR_GRAF The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion kinase. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase (GRAF), also called Rho GTPase activating protein 26 (ARHGAP26), is a GAP with activity towards RhoA and Cdc42 and is only weakly active towards Rac1. It influences Rho-mediated cytoskeletal rearrangements and binds focal adhesion kinase (FAK), which is a critical component of integrin signaling. GRAF 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 domain of GRAF directly interacts with its Rho GAP domain and inhibits its activity. Autoinhibited GRAF is capable o
Probab=53.26 E-value=60 Score=28.14 Aligned_cols=68 Identities=16% Similarity=0.286 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc-------------------C-C-chhHHHHHHHHHHHHHHHHHHHHH----
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQLSAA-------------------G-P-SEDSNVRKNVQRSLATDLQNLSME---- 173 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~-------------------~-~-~~E~~i~kNvq~sLA~kLQ~LS~~---- 173 (213)
-|.++|.+..-|.++++.|...|...... + + -+|.....++-..++.-|+++...
T Consensus 7 ~E~~le~~~k~ik~liK~~k~~i~A~k~~~~a~~~Fa~sL~~f~~~~~gd~~~dDe~~I~~~L~kF~~~L~ei~~~r~~L 86 (207)
T cd07636 7 HEAELDKTNKFIKELIKDGKSLIAALKNLSSAKRKFADSLNEFKFQCIGDAETDDEICIARSLQEFAAVLRNLEDERTRM 86 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47789999999999999999888753210 1 1 223344558888899999998754
Q ss_pred HHHHHHHHHHHHH
Q 028123 174 LRKKQSTYLKRLR 186 (213)
Q Consensus 174 FRk~Q~~YL~~Lk 186 (213)
+-..|...++.|.
T Consensus 87 ~~qa~~~l~~~L~ 99 (207)
T cd07636 87 IENASEVLITPLE 99 (207)
T ss_pred HHHHHHHHHHHHH
Confidence 3345666666554
No 19
>PF01540 Lipoprotein_7: Adhesin lipoprotein; InterPro: IPR002520 This family consists of the p50 and variable adherence-associated antigen (Vaa) adhesins from Mycoplasma hominis. M. hominis is a mycoplasma associated with human urogenital diseases, pneumonia, and septic arthritis []. An adhesin is a cell surface molecule that mediates adhesion to other cells or to the surrounding surface or substrate. The Vaa antigen is a 50kDa surface lipoprotein that has four tandem repetitive DNA sequences encoding a periodic peptide structure, and is highly immunogenic in the human host []. p50 is also a 50kDa lipoprotein, having three repeats A,B and C, that may be a tetramer of 191kDa in its native environment [].
Probab=50.70 E-value=2e+02 Score=26.35 Aligned_cols=85 Identities=18% Similarity=0.272 Sum_probs=64.4
Q ss_pred CCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHH
Q 028123 75 GLPPAWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSN 154 (213)
Q Consensus 75 ~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~ 154 (213)
++--.|....+--...|..|...++.|+.+++. -++|...+..|++-+...++..+. ....+.+|..
T Consensus 214 gmksEWA~V~~AwkneLsEINSI~~gvEeLkKL------------AqEIss~Sn~lk~TIseLEKkFkI-dd~tn~~e~k 280 (353)
T PF01540_consen 214 GMKSEWARVQEAWKNELSEINSIIKGVEELKKL------------AQEISSHSNKLKATISELEKKFKI-DDSTNKEEMK 280 (353)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHhhcc-ccccchhHHH
Confidence 466778888888888888888877777776654 348999999999999999965543 3344567888
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 028123 155 VRKNVQRSLATDLQNLSM 172 (213)
Q Consensus 155 i~kNvq~sLA~kLQ~LS~ 172 (213)
.=+|---.||.+|-+-|.
T Consensus 281 ~fK~qlE~ladqLl~ks~ 298 (353)
T PF01540_consen 281 KFKNQLENLADQLLEKSR 298 (353)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 888888888888776553
No 20
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=50.19 E-value=78 Score=30.92 Aligned_cols=35 Identities=17% Similarity=0.413 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 028123 156 RKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQKE 190 (213)
Q Consensus 156 ~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e 190 (213)
.+|-+.+|-.+|..+-..|+..|-.|+..++++..
T Consensus 409 sr~eKetLqlelkK~k~nyv~LQEry~~eiQqKnk 443 (527)
T PF15066_consen 409 SRNEKETLQLELKKIKANYVHLQERYMTEIQQKNK 443 (527)
T ss_pred HHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhh
Confidence 35556667778889999999999999999988764
No 21
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=49.08 E-value=1.1e+02 Score=22.94 Aligned_cols=70 Identities=17% Similarity=0.278 Sum_probs=40.7
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 115 DGKEDQHAIESLTQEITNILKRSEKRLQQLSAAG-PSEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKR 184 (213)
Q Consensus 115 D~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~-~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~ 184 (213)
|++.....|+.+..-|..-+.-.+..|......+ ......+.....+.+...|..+...|+..+..+|+.
T Consensus 64 ~~p~q~~~l~~l~~~~~~~~~~~~~~i~~~~~~~~~~a~~~~~~~~~~~~~~~i~~~~~~~~~~e~~~l~~ 134 (138)
T PF05227_consen 64 DNPEQQERLDQLEELIDQWRELLEPQIALRKSGGMEAARALVNSGEGKQLMDQIRQLLEQIQAEEQRLLKQ 134 (138)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHHHHHHH-GG-GHHHHHHHHHHHGGG-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455555566666666666644455544444311 122333444555668889999999998888887765
No 22
>COG3388 Predicted transcriptional regulator [Transcription]
Probab=47.71 E-value=53 Score=25.31 Aligned_cols=33 Identities=18% Similarity=0.263 Sum_probs=29.7
Q ss_pred CCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028123 76 LPPAWVDVSEEIATNVQRARTKMAELARAHAKA 108 (213)
Q Consensus 76 lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~ 108 (213)
+.|.+.+..+++...+..|.++++.+....++-
T Consensus 67 ~td~~~e~ie~i~~dl~ei~e~~~~i~e~~~~l 99 (101)
T COG3388 67 LTDDFPEFIEEIIGDLSEINEEAENIEEDVAKL 99 (101)
T ss_pred cCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 688899999999999999999999999888763
No 23
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=47.31 E-value=83 Score=23.98 Aligned_cols=89 Identities=15% Similarity=0.233 Sum_probs=50.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHHHHHH
Q 028123 81 VDVSEEIATNVQRARTKMAELARAHAKALMPSFGDG--KEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSNVRKN 158 (213)
Q Consensus 81 vd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~--~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~i~kN 158 (213)
-+.-+|+...-..+..-..+|..+..+.- ...++. .--+..+..|... .++......|.. =. |
T Consensus 31 ~~~~~E~~rl~~Al~~~~~eL~~l~~~~~-~~~~~~~a~If~ah~~~L~D~--~l~~~v~~~I~~-----------~~-~ 95 (123)
T PF05524_consen 31 DDIEAEIERLEQALEKAREELEQLAERAE-SKLGEEEAAIFEAHLMMLEDP--ELIDEVEELIRE-----------GK-N 95 (123)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCHSSCTHHHHHHHHHHT-H--HHHHHHHHHHHH-----------H---
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhccccHHHHHHHHHHHhcCH--hHHHHHHHHHhc-----------cC-C
Confidence 45666666666666666677777777621 223222 1123344333332 122333332221 12 8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 159 VQRSLATDLQNLSMELRKKQSTYLKR 184 (213)
Q Consensus 159 vq~sLA~kLQ~LS~~FRk~Q~~YL~~ 184 (213)
+-.++..-+.++...|+.+...||+.
T Consensus 96 Ae~Av~~~~~~~~~~f~~~~d~ylre 121 (123)
T PF05524_consen 96 AEYAVQEVIEEYIEQFEAMDDPYLRE 121 (123)
T ss_dssp HHHHHHHHHHHHHHHHHTSS-HHHHH
T ss_pred HHHHHHHHHHHHHHHHHhCCCHHHHh
Confidence 88899999999999999999999873
No 24
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=46.02 E-value=1.9e+02 Score=24.61 Aligned_cols=34 Identities=15% Similarity=0.339 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCC
Q 028123 83 VSEEIATNVQRARTKMAELARAHAKALMPSFGDG 116 (213)
Q Consensus 83 ~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~ 116 (213)
.+.++...+........++..-|.+.|.|+++..
T Consensus 89 ~~~~i~~~f~~~~~~~~~~k~~h~~~LrP~LghP 122 (208)
T PF14644_consen 89 AMKAIQEEFEQQQKQWEQQKDQHEQQLRPNLGHP 122 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCC
Confidence 3455666666677777777888888899999973
No 25
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=45.23 E-value=3.1e+02 Score=26.85 Aligned_cols=98 Identities=11% Similarity=0.152 Sum_probs=52.3
Q ss_pred cccCCC-chHHhHHHHHHHHHHHHHHHHHHHHHHHHhhh--CCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-
Q 028123 72 VTVGLP-PAWVDVSEEIATNVQRARTKMAELARAHAKAL--MPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAA- 147 (213)
Q Consensus 72 ~~~~lp-P~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L--~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~- 147 (213)
.+...| |.+|..+|-++-.+..|...+-.-.+.-.... -.+|+= ..-...-..-.+|...|--.-++|..+...
T Consensus 265 ~d~r~~~p~ivq~Ye~mq~~~k~v~~~~p~Y~~~l~SL~~get~~tl--k~~~dLR~k~~el~~s~D~~sKkI~~l~~~p 342 (505)
T KOG1842|consen 265 QDEREPSPGIVQHYEHLQVFRKEVDNLLPLYEDSLNSLKEGETTYTL--KHAKDLRKKFLELCESIDGTSKKIANLPSSP 342 (505)
T ss_pred hhhccCCchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcccccccH--hhHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 344566 88888888766555555444332222221110 011111 111122233333444444444555555444
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHH
Q 028123 148 GPSEDSNVRKNVQRSLATDLQNLS 171 (213)
Q Consensus 148 ~~~~E~~i~kNvq~sLA~kLQ~LS 171 (213)
.++.|..+++|++-.-+.-||+.-
T Consensus 343 ~~~~E~qLkk~Irl~a~~~lqEki 366 (505)
T KOG1842|consen 343 PSDAEEQLKKNIRLEAKQYLQEKI 366 (505)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHh
Confidence 467799999999999999888864
No 26
>PF06631 DUF1154: Protein of unknown function (DUF1154); InterPro: IPR009535 This entry represents group a 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta conserved site.; GO: 0004435 phosphatidylinositol phospholipase C activity, 0005509 calcium ion binding, 0006629 lipid metabolic process
Probab=43.84 E-value=59 Score=21.77 Aligned_cols=35 Identities=14% Similarity=0.152 Sum_probs=31.2
Q ss_pred CCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 75 GLPPAWVDVSEEIATNVQRARTKMAELARAHAKAL 109 (213)
Q Consensus 75 ~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L 109 (213)
.++|.+++.+-.=...+.-++..-.+|..|+++|.
T Consensus 5 ~~~pi~le~Lk~~K~y~Kl~KKq~KEl~~lkKKh~ 39 (47)
T PF06631_consen 5 KVEPITLEELKQHKAYVKLLKKQQKELEELKKKHQ 39 (47)
T ss_pred cCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999998888999999999999999999986
No 27
>COG1315 Uncharacterized conserved protein [Function unknown]
Probab=43.68 E-value=1.4e+02 Score=29.54 Aligned_cols=37 Identities=19% Similarity=0.402 Sum_probs=32.2
Q ss_pred CccccCCCchHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 70 GAVTVGLPPAWVDVSEEIATNVQRARTKMAELARAHA 106 (213)
Q Consensus 70 ~~~~~~lpP~Wvd~~eei~~~l~~Ik~km~eL~kLh~ 106 (213)
....++.-|.|++...+..+.+...++++++|.++-.
T Consensus 398 t~~~vG~dpe~~~~l~~lt~~~~~~ee~l~~Lt~~l~ 434 (543)
T COG1315 398 TAIDVGMDPEIVERLKELTEEISLHEERLKKLTKLLV 434 (543)
T ss_pred eeeEeccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567889999999999999999999999998887654
No 28
>PF03930 Flp_N: Recombinase Flp protein N-terminus; InterPro: IPR022647 This entry describes the N-terminal domain of Recombinase Flp protein and is found in fungi. FLP proteins catalyse recombination between large inverted repetitions of the plasmid.; PDB: 1P4E_C 1FLO_C 1M6X_A.
Probab=40.61 E-value=8.7 Score=28.65 Aligned_cols=19 Identities=26% Similarity=0.487 Sum_probs=15.3
Q ss_pred CCccccch----HHHHHHHHhcc
Q 028123 1 MATRNRTL----IYKRYRDALKT 19 (213)
Q Consensus 1 MatRnrT~----~F~~yR~~~~~ 19 (213)
||||++|+ .|.+||+.+++
T Consensus 1 mat~~~~eiK~sTF~kY~~~I~~ 23 (82)
T PF03930_consen 1 MATRKLREIKRSTFMKYKRIISK 23 (82)
T ss_dssp HHHHTT---BHHHHHHHHHHHHH
T ss_pred CccccchhHHHHHHHHHHHHHhh
Confidence 88998874 79999999987
No 29
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=39.49 E-value=3.1e+02 Score=25.29 Aligned_cols=29 Identities=24% Similarity=0.273 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 153 SNVRKNVQRSLATDLQNLSMELRKKQSTY 181 (213)
Q Consensus 153 ~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~Y 181 (213)
..+.+=.|..|+.+|+++-..|-..+..+
T Consensus 264 L~~ske~Q~~L~aEL~elqdkY~E~~~mL 292 (306)
T PF04849_consen 264 LQASKESQRQLQAELQELQDKYAECMAML 292 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44557778889999888888887766554
No 30
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=39.27 E-value=99 Score=23.74 Aligned_cols=60 Identities=12% Similarity=0.274 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 117 KEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSNVRKNVQRSLATDLQNLSMELRKKQS 179 (213)
Q Consensus 117 ~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~ 179 (213)
++...+|+.|..+...+..+.-..|-++.....=.|..|-.. .|...+.++...||+.|-
T Consensus 6 s~I~~eI~kLqe~lk~~e~keAERigRiAlKAGLgeieI~d~---eL~~aFeeiAaRFR~g~~ 65 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETREAERIGRIALKAGLGEIEIEEA---ELQAAFEELAKRFRGGKG 65 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCHH---HHHHHHHHHHHHHhcCCC
Confidence 344567777777777777666666666655332222222222 256677788888887554
No 31
>cd07635 BAR_GRAF2 The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase 2 (GRAF2), also called Rho GTPase activating protein 10 (ARHGAP10) or PS-GAP, is a GAP with activity towards Cdc42 and RhoA which regulates caspase-activated p21-activated protein kinase-2 (PAK-2p34). GRAF2 interacts with PAK-2p34, leading to its stabilization and decrease of cell death. It is highly expressed in skeletal muscle and also interacts with PKNbeta, which is a target of Rho. GRAF2 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 domain of the related prote
Probab=38.90 E-value=1.3e+02 Score=26.01 Aligned_cols=27 Identities=15% Similarity=0.254 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQLS 145 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~i~ 145 (213)
-|.+.|....-|.++++.|...|....
T Consensus 7 ~e~~le~~~k~i~kLiK~c~~~i~a~k 33 (207)
T cd07635 7 HEAELERTNRFIKELLKDGKNLIAATK 33 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999998877643
No 32
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=38.17 E-value=2e+02 Score=22.64 Aligned_cols=29 Identities=24% Similarity=0.311 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 161 RSLATDLQNLSMELRKKQSTYLKRLRQQK 189 (213)
Q Consensus 161 ~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~ 189 (213)
..+..+|+..-..|+..|..+-+.+...+
T Consensus 79 ~~~~~~l~~~~~~l~~~~~~~~~~l~~~~ 107 (158)
T PF03938_consen 79 QKRQQELQQKEQELQQFQQQAQQQLQQEE 107 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555444433
No 33
>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=37.27 E-value=1.4e+02 Score=25.81 Aligned_cols=55 Identities=16% Similarity=0.200 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc-------------------C-C-chhHHHHHHHHHHHHHHHHHHHHH
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQLSAA-------------------G-P-SEDSNVRKNVQRSLATDLQNLSME 173 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~-------------------~-~-~~E~~i~kNvq~sLA~kLQ~LS~~ 173 (213)
-|.+.|...+-|.++++.|...|...... + + .++.....+.-.-++.-|+++...
T Consensus 7 ~e~~l~~t~~~ik~liK~c~~li~A~k~~~~a~~~Fa~sL~~f~~~~igd~~tDde~~i~~~l~~Fs~~l~el~~~ 82 (207)
T cd07634 7 HEIELERTNKFIKELIKDGSLLIGALRNLSMAVQKFSQSLQDFQFECIGDAETDDEISIAQSLKEFARLLIAVEEE 82 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccHHHHHHHHHHHHHHHHHHHHH
Confidence 36688999999999999999888775431 1 1 133334555666677777777663
No 34
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=36.52 E-value=22 Score=24.96 Aligned_cols=19 Identities=32% Similarity=0.742 Sum_probs=9.2
Q ss_pred CCCchHHhHH-HHHHHHHHH
Q 028123 75 GLPPAWVDVS-EEIATNVQR 93 (213)
Q Consensus 75 ~lpP~Wvd~~-eei~~~l~~ 93 (213)
.-||.|++.. |||++.|-+
T Consensus 20 ~~~P~W~~~~~~eVe~~I~k 39 (60)
T PF08069_consen 20 RSPPSWLKYSPEEVEELIVK 39 (60)
T ss_dssp SS--TT--S-HHHHHHHHHH
T ss_pred CCCCCCcCCCHHHHHHHHHH
Confidence 4699999975 777665543
No 35
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=36.28 E-value=3.4e+02 Score=24.88 Aligned_cols=89 Identities=17% Similarity=0.260 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHhhhCCCCCCChHHHHHHHHHHHHHHHHH-----HHHHHHHHHhhhcCC----chhHH
Q 028123 85 EEIATNVQRARTKMAELA-RAHAKALMPSFGDGKEDQHAIESLTQEITNIL-----KRSEKRLQQLSAAGP----SEDSN 154 (213)
Q Consensus 85 eei~~~l~~Ik~km~eL~-kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf-----~~~e~~Ik~i~~~~~----~~E~~ 154 (213)
..=+-.|.-++.|+++=. .||.+ |.||+.|..+..+|= .+||+.=.++.-... .+=..
T Consensus 64 QQKEV~iRHLkakLkes~~~l~dR------------etEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQ 131 (305)
T PF15290_consen 64 QQKEVCIRHLKAKLKESENRLHDR------------ETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQ 131 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445666666665532 33433 457888888777763 346654333332211 12236
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Q 028123 155 VRKNVQRSLATDLQNLSMELR--KKQSTYLKRL 185 (213)
Q Consensus 155 i~kNvq~sLA~kLQ~LS~~FR--k~Q~~YL~~L 185 (213)
+.+.|+.+|+-+=..+-+-|- ++|+.-|.-|
T Consensus 132 vieTmrssL~ekDkGiQKYFvDINiQN~KLEsL 164 (305)
T PF15290_consen 132 VIETMRSSLAEKDKGIQKYFVDINIQNKKLESL 164 (305)
T ss_pred HHHHHHhhhchhhhhHHHHHhhhhhhHhHHHHH
Confidence 678888888888555555554 3466555553
No 36
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=35.67 E-value=1.4e+02 Score=22.79 Aligned_cols=59 Identities=12% Similarity=0.299 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 118 EDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSNVRKNVQRSLATDLQNLSMELRKKQS 179 (213)
Q Consensus 118 ~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~ 179 (213)
..+.+|+.|..++..+-.+.-..|-.+.....-.|..|-.. -|...+.++...||+.+.
T Consensus 6 ~I~~eIekLqe~lk~~e~keaERigr~AlKaGL~eieI~d~---eL~~~FeeIa~RFrk~~~ 64 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKEAERIGRIALKAGLGEIEISDA---ELQAAFEEIAARFRKGKK 64 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCHH---HHHHHHHHHHHHHhcccc
Confidence 34566777777777776666666666654322222222222 145567777777776543
No 37
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=35.40 E-value=1.6e+02 Score=20.84 Aligned_cols=89 Identities=12% Similarity=0.141 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC----Cc----hhHH
Q 028123 83 VSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSAAG----PS----EDSN 154 (213)
Q Consensus 83 ~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~----~~----~E~~ 154 (213)
.+++|+..-..|..-=..+.++...|- ..-.....+ ..+..+|..+-......++.+...- .. ....
T Consensus 5 f~~~v~~i~~~i~~i~~~~~~l~~l~~--~~l~~~~~d---~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~~~~~~~~~ 79 (103)
T PF00804_consen 5 FFDEVQEIREDIDKIKEKLNELRKLHK--KILSSPDQD---SELKRELDELTDEIKQLFQKIKKRLKQLSKDNEDSEGEE 79 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHTSSSHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HhcCCCCcc---hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccC
Confidence 345555555555555555566666652 111112212 5667777777777776666665532 22 1234
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 028123 155 VRKNVQRSLATDLQNLSMELRK 176 (213)
Q Consensus 155 i~kNvq~sLA~kLQ~LS~~FRk 176 (213)
...++.+...+.++.|+..|++
T Consensus 80 ~~~~~~ri~~nq~~~L~~kf~~ 101 (103)
T PF00804_consen 80 PSSNEVRIRKNQVQALSKKFQE 101 (103)
T ss_dssp --SHHHHHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHHHHHHHH
Confidence 5667888888888888888876
No 38
>PF07426 Dynactin_p22: Dynactin subunit p22; InterPro: IPR009991 This family contains p22, the smallest subunit of dynactin, a complex that binds to cytoplasmic dynein and is a required activator for cytoplasmic dynein-mediated vesicular transport. Dynactin localises to the cleavage furrow and to the midbodies of dividing cells, suggesting that it may function in cytokinesis [].
Probab=34.43 E-value=2e+02 Score=24.02 Aligned_cols=27 Identities=30% Similarity=0.432 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 120 QHAIESLTQEITNILKRSEKRLQQLSA 146 (213)
Q Consensus 120 e~eIE~lT~eIt~lf~~~e~~Ik~i~~ 146 (213)
+.+-+.++.++..++..+.+.|..|+.
T Consensus 139 ~e~~~~ls~~~~~Ll~~YN~ii~~lSk 165 (174)
T PF07426_consen 139 QEESEELSEEVQELLQQYNKIILLLSK 165 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777888888777777766654
No 39
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=34.21 E-value=3.9e+02 Score=24.86 Aligned_cols=16 Identities=19% Similarity=0.289 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 028123 163 LATDLQNLSMELRKKQ 178 (213)
Q Consensus 163 LA~kLQ~LS~~FRk~Q 178 (213)
|-.++++....|.+++
T Consensus 73 L~~~Ik~r~~~l~DmE 88 (330)
T PF07851_consen 73 LEEDIKERRCQLFDME 88 (330)
T ss_pred HHHHHHHHHhhHHHHH
Confidence 3344555666666666
No 40
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=34.09 E-value=1.9e+02 Score=21.32 Aligned_cols=83 Identities=17% Similarity=0.287 Sum_probs=46.8
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-------c----
Q 028123 79 AWVDVSEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSA-------A---- 147 (213)
Q Consensus 79 ~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~-------~---- 147 (213)
+|....+||...+.++...+.....+. .-... -.++..++.++...+..++..|..|.. .
T Consensus 2 PF~~v~~ev~~sl~~l~~~~~~~~~~~------~~~~~---~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF 72 (97)
T PF09177_consen 2 PFFVVKDEVQSSLDRLESLYRRWQRLR------SDTSS---SEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKF 72 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHT------THCC----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHhc------ccCCC---cHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccc
Confidence 377777888777766655544443222 22222 225566666666666666665555543 2
Q ss_pred -CCchhHHHHHHHHHHHHHHHHHH
Q 028123 148 -GPSEDSNVRKNVQRSLATDLQNL 170 (213)
Q Consensus 148 -~~~~E~~i~kNvq~sLA~kLQ~L 170 (213)
-+..|..=|+.....+-.+|..+
T Consensus 73 ~l~~~Ei~~Rr~fv~~~~~~i~~~ 96 (97)
T PF09177_consen 73 NLSEEEISRRRQFVSAIRNQIKQM 96 (97)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhc
Confidence 13556666777777766666553
No 41
>PF05405 Mt_ATP-synt_B: Mitochondrial ATP synthase B chain precursor (ATP-synt_B); InterPro: IPR008688 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit B from the F0 complex in F-ATPases found in mitochondria of eukaryotes (metazoa, viridiplantae (plants and green algae), jakobidae and the malawimonadidae). The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2WSS_X 2CLY_D.
Probab=33.83 E-value=2.5e+02 Score=22.54 Aligned_cols=99 Identities=17% Similarity=0.186 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-cCCchhHHHHHHHHHHH
Q 028123 85 EEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQLSA-AGPSEDSNVRKNVQRSL 163 (213)
Q Consensus 85 eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~-~~~~~E~~i~kNvq~sL 163 (213)
+..+..+..|...+......|.+.+. +.-+...+...++..+..+|.-+...++.... .....-..+..++++.|
T Consensus 40 ~~ld~~~~~i~~~l~~~~~~~~~~~~----~~i~~~~~~~~~~~~~~~l~~~~ke~~~~~~e~~~~~~~~~v~~evk~~L 115 (163)
T PF05405_consen 40 EWLDERIQKIEDELNQSRNDHIKALK----ERIEQVKKEQSLVEGTKMLFEASKENVALQLEAFYREQQAAVAQEVKRRL 115 (163)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555677777777777777777651 11122334444455555555555544444332 12344567888888888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 164 ATDLQNLSMELRKKQSTYLKRLRQ 187 (213)
Q Consensus 164 A~kLQ~LS~~FRk~Q~~YL~~Lk~ 187 (213)
..-+..-...-|..|..+.+-+-.
T Consensus 116 d~~v~~e~~~r~~~Q~~l~~~v~~ 139 (163)
T PF05405_consen 116 DYWVEYEQSVRRREQKHLVKWVIS 139 (163)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 888888888888888888877643
No 42
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=32.23 E-value=2e+02 Score=20.94 Aligned_cols=46 Identities=20% Similarity=0.368 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChH-HHHHHHHHHHHHHH
Q 028123 85 EEIATNVQRARTKMAELARAHAKALMPSFGDGKE-DQHAIESLTQEITN 132 (213)
Q Consensus 85 eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~-ee~eIE~lT~eIt~ 132 (213)
.++......|+.|+.....+=.. +|+.+...+ .+.+|+.|-.+|..
T Consensus 24 kd~~~~~~~lk~Klq~ar~~i~~--lpgi~~s~eeq~~~i~~Le~~i~~ 70 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQKARAAIRE--LPGIDRSVEEQEEEIEELEEQIRK 70 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh--CCCccCCHHHHHHHHHHHHHHHHH
Confidence 44555566666666665554444 566665433 35567776666544
No 43
>cd07639 BAR_ACAP1 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP1 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1), also called centaurin beta-1, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP1 also participates in the cargo sorting and recycling of the transferrin receptor and integrin beta1. It may also play a role in innate immune responses. ACAP1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=31.37 E-value=3.4e+02 Score=23.31 Aligned_cols=24 Identities=21% Similarity=0.371 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 84 SEEIATNVQRARTKMAELARAHAK 107 (213)
Q Consensus 84 ~eei~~~l~~Ik~km~eL~kLh~K 107 (213)
+++++..+..+..+|.+|.|.-+.
T Consensus 4 i~~~E~~~~~le~~l~kl~K~~k~ 27 (200)
T cd07639 4 IEEVEAEVSELETRLEKLVKLGSG 27 (200)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555555444
No 44
>PF14738 PaaSYMP: Solute carrier (proton/amino acid symporter), TRAMD3 or PAT1
Probab=30.63 E-value=2.8e+02 Score=22.89 Aligned_cols=38 Identities=11% Similarity=0.247 Sum_probs=29.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 150 SEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQ 187 (213)
Q Consensus 150 ~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~ 187 (213)
..+.....-+-+.......+.-..+.+.|..|++.|++
T Consensus 117 ~~~~~~~~Rle~~~~~~~~~k~~~i~ki~~~~~r~lRK 154 (154)
T PF14738_consen 117 EQEEANEQRLERLWQKKQKEKERKIEKIEKERIRALRK 154 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34445555566677778888889999999999998874
No 45
>cd07637 BAR_ACAP3 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP3 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3), also called centaurin beta-5, is presumed to be an Arf GTPase activating protein (GAP) based on its similarity to the Arf6-specific GAPs ACAP1 and ACAP2. The specific function of ACAP3 is still unknown. ACAP3 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=29.66 E-value=2.6e+02 Score=23.84 Aligned_cols=24 Identities=4% Similarity=0.241 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 120 QHAIESLTQEITNILKRSEKRLQQ 143 (213)
Q Consensus 120 e~eIE~lT~eIt~lf~~~e~~Ik~ 143 (213)
|..|+.|...+-++.+.|...|..
T Consensus 8 E~~~~~le~~l~kl~K~~~~~~d~ 31 (200)
T cd07637 8 ETDVVEIEAKLDKLVKLCSGMIEA 31 (200)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555555544
No 46
>smart00762 Cog4 COG4 transport protein. This region is found in yeast oligomeric golgi complex component 4 which is involved in ER to Golgi and intra Golgi transport.
Probab=29.08 E-value=4e+02 Score=24.15 Aligned_cols=65 Identities=20% Similarity=0.306 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC---C---------chhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 118 EDQHAIESLTQEITNILKRSEKRLQQLSAAG---P---------SEDS---NVRKNVQRSLATDLQNLSMELRKKQSTYL 182 (213)
Q Consensus 118 ~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~---~---------~~E~---~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL 182 (213)
-+-++|+.+-.||+.+..+++--.+-+.... . +.+. .+-. ...|..++|+|...|=..+.-|+
T Consensus 173 ~d~revd~lL~Eis~i~~~~~lY~rFi~~k~~~~~~~~~~~~~~~~~~~~~~~~~--~s~l~~kvqell~~Y~~le~~y~ 250 (324)
T smart00762 173 LDPRELDAILEEISQILSRWELYCRFISRKINEFTERSQDPEEEKQEIELPKLLR--DSKFSTKIQELLGTYVPLETYYF 250 (324)
T ss_pred CCHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcccccccccccccccccchhh--cChHHHHHHHHHHHHHHHHHHHH
Confidence 3557899999999999999986655554311 0 1111 1112 36689999999999999999999
Q ss_pred HH
Q 028123 183 KR 184 (213)
Q Consensus 183 ~~ 184 (213)
.+
T Consensus 251 ~~ 252 (324)
T smart00762 251 RR 252 (324)
T ss_pred HH
Confidence 87
No 47
>cd07603 BAR_ACAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) containing an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. Vertebrates contain at least three members, ACAP1, ACAP2, and ACAP3. ACAP1 and ACAP2 are Arf6-specific GAPs, involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration, by mediating Arf6 signaling. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=28.74 E-value=1.9e+02 Score=24.63 Aligned_cols=25 Identities=12% Similarity=0.240 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQQ 143 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik~ 143 (213)
.|.+++.|...|.++.+.|...+..
T Consensus 7 ~E~~~~~l~~~l~kl~K~~~~~~~a 31 (200)
T cd07603 7 VEADVSELETRLEKLLKLCNGMVDS 31 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3667888888888888888877664
No 48
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=28.60 E-value=5.9e+02 Score=25.27 Aligned_cols=87 Identities=16% Similarity=0.274 Sum_probs=49.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHH----HHHhhhC--CCCCC-----ChHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 028123 80 WVDVSEEIATNVQRARTKMAELAR----AHAKALM--PSFGD-----GKEDQHAIESLTQEITNILKRSEKRLQQLSAAG 148 (213)
Q Consensus 80 Wvd~~eei~~~l~~Ik~km~eL~k----Lh~K~L~--p~FdD-----~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~ 148 (213)
..+.-+++...+..|++|+.+|-. +-.|.++ ..++- ...-+.+|+.+-++++.++...+- +....
T Consensus 403 l~~~q~e~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~k~R~~eV~~vRqELa~lLssvQ~----~~e~~ 478 (531)
T PF15450_consen 403 LDQWQNEMEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDTKIDTEGKAREREVGAVRQELATLLSSVQL----LKEDN 478 (531)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH----hcCCC
Confidence 344556777778888888876543 4444433 23331 234477899999998887765442 21111
Q ss_pred C-----chhHHHHHHHHHHHHHHHHHH
Q 028123 149 P-----SEDSNVRKNVQRSLATDLQNL 170 (213)
Q Consensus 149 ~-----~~E~~i~kNvq~sLA~kLQ~L 170 (213)
+ .--..+..|.-+.|++-||.-
T Consensus 479 ~~rkiaeiqg~l~~~qi~kle~siq~n 505 (531)
T PF15450_consen 479 PGRKIAEIQGKLATNQIMKLENSIQTN 505 (531)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 012344567777777766653
No 49
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=27.19 E-value=3.5e+02 Score=22.12 Aligned_cols=50 Identities=20% Similarity=0.300 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 84 SEEIATNVQRARTKMAELARAHAKALMPSFGDGKEDQHAIESLTQEITNILKRSEKRLQQL 144 (213)
Q Consensus 84 ~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~ee~eIE~lT~eIt~lf~~~e~~Ik~i 144 (213)
-.++++-+..++.++++|.+.-.+ .+..|+.|+..++++-...+...+.-
T Consensus 89 e~~~~eAie~l~k~~~~l~~~~~~-----------l~~~l~~l~~~~~~l~~~~q~~~q~~ 138 (145)
T COG1730 89 EKSADEAIEFLKKRIEELEKAIEK-----------LQQALAELAQRIEQLEQEAQQLQQKQ 138 (145)
T ss_pred eecHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777888999999999887766 46678888888888877777655443
No 50
>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]
Probab=26.56 E-value=6e+02 Score=24.64 Aligned_cols=51 Identities=18% Similarity=0.206 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhhhC--CCCCCCh--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 96 TKMAELARAHAKALM--PSFGDGK--------EDQHAIESLTQEITNILKRSEKRLQQLSA 146 (213)
Q Consensus 96 ~km~eL~kLh~K~L~--p~FdD~~--------~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~ 146 (213)
.++.+|...|+..++ -.||++. ..|..|+.|.+.+.++|+.|......-..
T Consensus 145 e~~~q~da~~qq~~~ele~~d~~~~~d~ee~kqlEe~ieeL~qsl~kd~~~~~~l~~e~n~ 205 (446)
T KOG4438|consen 145 ELRKQLDAKYQQALKELERFDEDVEEDEEEVKQLEENIEELNQSLLKDFNQQMSLLAEYNK 205 (446)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667777665 5677632 23567999999999999999987766543
No 51
>COG3524 KpsE Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]
Probab=26.49 E-value=2.2e+02 Score=26.65 Aligned_cols=49 Identities=22% Similarity=0.254 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 133 ILKRSEKRLQQLSAAGPSEDSNVRKNVQRSLATDLQNLSMELRKKQSTY 181 (213)
Q Consensus 133 lf~~~e~~Ik~i~~~~~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~Y 181 (213)
+.++.+..|..|+.....+-....+|++.....++++.+...++-+..|
T Consensus 161 ilkqse~lIN~Ls~rAr~dt~r~Ae~eV~~~eerv~kAs~~L~~yr~kn 209 (372)
T COG3524 161 ILKQSEKLINQLSERARRDTVRFAEEEVQKAEERVKKASNDLTDYRIKN 209 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhc
Confidence 4688999999998877778888899999999999999999888776554
No 52
>KOG1222 consensus Kinesin associated protein KAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.36 E-value=5.3e+02 Score=25.95 Aligned_cols=115 Identities=19% Similarity=0.229 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCChHH---HHHHHHHHHHHHHHHHHHHHHHHHhhh------cC-CchhH
Q 028123 84 SEEIATNVQRARTKMAELARAHAKALMPSFGDGKED---QHAIESLTQEITNILKRSEKRLQQLSA------AG-PSEDS 153 (213)
Q Consensus 84 ~eei~~~l~~Ik~km~eL~kLh~K~L~p~FdD~~~e---e~eIE~lT~eIt~lf~~~e~~Ik~i~~------~~-~~~E~ 153 (213)
++-|+..+.+-..=++||.+-. ..-|++++. ..+||.+.......+++-+..+...-. .. +-++.
T Consensus 225 mn~idhElkRye~w~~El~k~k-----rs~de~p~netLk~e~dr~~kklk~~~~KQeqLLrva~ylLlNlAed~~~ElK 299 (791)
T KOG1222|consen 225 MNAIDHELKRYEFWIAELKKTK-----RSTDEKPKNETLKEEIDRLNKKLKTAIRKQEQLLRVAVYLLLNLAEDISVELK 299 (791)
T ss_pred HHHHHHHHHHHHHHHHHHhhhh-----cccccCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence 5667777777777777776543 223333322 234444444444444443333332111 12 33444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCCCc
Q 028123 154 NVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQQKEVHEEFPCRSSIEP 203 (213)
Q Consensus 154 ~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~~~~~~~~~~~~~ 203 (213)
-.++|++..|...|+.-+...=-.=..||++|-=-.|+...+.-++-+|-
T Consensus 300 MrrkniV~mLVKaLdr~n~~Ll~lv~~FLkKLSIf~eNK~~M~~~~iveK 349 (791)
T KOG1222|consen 300 MRRKNIVAMLVKALDRSNSSLLTLVIKFLKKLSIFDENKIVMEQNGIVEK 349 (791)
T ss_pred HHHHhHHHHHHHHHcccchHHHHHHHHHHHHhhhhccchHHHHhccHHHH
Confidence 55799999999999988877777888888888766665555554444443
No 53
>PRK11546 zraP zinc resistance protein; Provisional
Probab=25.55 E-value=3.8e+02 Score=21.95 Aligned_cols=49 Identities=18% Similarity=0.291 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 134 LKRSEKRLQQLSAAGPSEDSNVRKNVQRSLATDLQNLSMELRKKQSTYLKRLRQ 187 (213)
Q Consensus 134 f~~~e~~Ik~i~~~~~~~E~~i~kNvq~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~ 187 (213)
+..-+..|+.+....++++.+|+ +|+.+|++|-..+...--.|=.++.+
T Consensus 70 L~aKr~ELnALl~~~~pD~~kI~-----aL~kEI~~Lr~kL~e~r~~~~~~~~k 118 (143)
T PRK11546 70 LVSKRYEYNALLTANPPDSSKIN-----AVAKEMENLRQSLDELRVKRDIAMAE 118 (143)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555555555554 36666666666655554444444444
No 54
>PRK11546 zraP zinc resistance protein; Provisional
Probab=25.22 E-value=3.5e+02 Score=22.10 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=16.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 028123 117 KEDQHAIESLTQEITNILKRSE 138 (213)
Q Consensus 117 ~~ee~eIE~lT~eIt~lf~~~e 138 (213)
..|+..|..++.||..+=.+..
T Consensus 85 ~pD~~kI~aL~kEI~~Lr~kL~ 106 (143)
T PRK11546 85 PPDSSKINAVAKEMENLRQSLD 106 (143)
T ss_pred CCCHHHHHHHHHHHHHHHHHHH
Confidence 3456678999999988876655
No 55
>PF14728 PHTB1_C: PTHB1 C-terminus
Probab=24.99 E-value=1.3e+02 Score=28.28 Aligned_cols=32 Identities=19% Similarity=0.377 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 028123 160 QRSLATDLQNLSMELRKKQSTYLKRLRQQKEV 191 (213)
Q Consensus 160 q~sLA~kLQ~LS~~FRk~Q~~YL~~Lk~r~e~ 191 (213)
...+..+|...+.+||-.|+..|.++|...-+
T Consensus 216 ~~~~~~~L~~~a~QfRaIQrrlL~r~kd~~p~ 247 (377)
T PF14728_consen 216 LKELEEELDERAQQFRAIQRRLLTRFKDKNPA 247 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCc
Confidence 34578899999999999999999999987654
No 56
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=24.79 E-value=3.5e+02 Score=21.28 Aligned_cols=30 Identities=17% Similarity=0.158 Sum_probs=17.5
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028123 80 WVDVSEEIATNVQRARTKMAELARAHAKAL 109 (213)
Q Consensus 80 Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L 109 (213)
||.....+...-..+..-+.+...|...+|
T Consensus 22 ~v~~l~~~~~~~~~~~~l~~~n~~lAe~nL 51 (150)
T PF07200_consen 22 FVKSLPQVQELQQEREELLAENEELAEQNL 51 (150)
T ss_dssp HGGGGS--HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHcCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 444444566666666666777777777766
No 57
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=24.77 E-value=3.8e+02 Score=25.34 Aligned_cols=37 Identities=19% Similarity=0.419 Sum_probs=30.7
Q ss_pred ccccCCC-chHHhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028123 71 AVTVGLP-PAWVDVSEEIATNVQRARTKMAELARAHAK 107 (213)
Q Consensus 71 ~~~~~lp-P~Wvd~~eei~~~l~~Ik~km~eL~kLh~K 107 (213)
...+++. |.+....+++...+..++..|.+|.+.-.+
T Consensus 322 ~i~vg~~~~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~ 359 (451)
T PF03961_consen 322 EIEVGVDRPELKEKLEELEEELEELKEELEKLKKNLKK 359 (451)
T ss_pred EEEEecCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455788 999999999999999999999888887443
No 58
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=23.60 E-value=4.6e+02 Score=27.25 Aligned_cols=35 Identities=23% Similarity=0.270 Sum_probs=17.0
Q ss_pred CCCchHHhHHHHHHHHHHH-------HHHHHHHHHHHHHhhh
Q 028123 75 GLPPAWVDVSEEIATNVQR-------ARTKMAELARAHAKAL 109 (213)
Q Consensus 75 ~lpP~Wvd~~eei~~~l~~-------Ik~km~eL~kLh~K~L 109 (213)
.+.-.+++.+..++..+.. ++..|+-|.+--+.+|
T Consensus 402 sl~~e~~QRva~lEkKvqa~~kERDalr~e~kslk~ela~~l 443 (961)
T KOG4673|consen 402 SLREEYHQRVATLEKKVQALTKERDALRREQKSLKKELAAAL 443 (961)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhh
Confidence 4555566666555554432 3344555544333333
No 59
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=23.40 E-value=6.1e+02 Score=23.67 Aligned_cols=21 Identities=14% Similarity=0.393 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 028123 85 EEIATNVQRARTKMAELARAH 105 (213)
Q Consensus 85 eei~~~l~~Ik~km~eL~kLh 105 (213)
..++..+..+...|.++..-|
T Consensus 28 ~~l~~~i~~ld~eI~~~v~~q 48 (383)
T PF04100_consen 28 AKLRKEIRELDEEIKELVREQ 48 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444443333
No 60
>cd09236 V_AnPalA_UmRIM20_like Protein-interacting V-domains of Aspergillus nidulans PalA/RIM20, Ustilago maydis RIM20, and related proteins. This family belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Aspergillus nidulas PalA/RIM20 and Ustilago maydis RIM20, like Saccharomyces cerevisiae Rim20, participate in the response to the external pH via the Pal/Rim101 pathway; however, Saccharomyces cerevisiae Rim20 does not belong to this family. This pathway is a signaling cascade resulting in the activation of the transcription factor PacC/Rim101. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. Aspergillus nidulas Pa
Probab=23.34 E-value=3.9e+02 Score=24.48 Aligned_cols=34 Identities=35% Similarity=0.657 Sum_probs=27.0
Q ss_pred cCCCchHHhHHHHHH--HHHHHHHHHHHHHHHHHHh
Q 028123 74 VGLPPAWVDVSEEIA--TNVQRARTKMAELARAHAK 107 (213)
Q Consensus 74 ~~lpP~Wvd~~eei~--~~l~~Ik~km~eL~kLh~K 107 (213)
.+|||.+++.+++|. ..+..|..-|.+|.++...
T Consensus 54 ~~lP~sl~~~~~~v~~~~g~~~l~~~l~~l~~l~~~ 89 (353)
T cd09236 54 LGLPPSLLRHAEEIRQEDGLERIRASLDDVARLAAS 89 (353)
T ss_pred CCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 469999999999987 3467777888888877754
No 61
>PF06015 Chordopox_A30L: Chordopoxvirus A30L protein; InterPro: IPR009257 This family consists of several short Chordopoxvirus proteins which are homologous to the A30L protein of Vaccinia virus. The vaccinia virus A30L protein is required for the association of electron-dense, granular, proteinaceous material with the concave surfaces of crescent membranes, an early step in viral morphogenesis. A30L is known to interact with the G7L protein and it has been shown that the stability of each is dependent on its association with the other [].
Probab=23.03 E-value=2e+02 Score=20.93 Aligned_cols=34 Identities=12% Similarity=0.144 Sum_probs=30.7
Q ss_pred CchHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q 028123 77 PPAWVDVSEEIATNVQRARTKMAELARAHAKALM 110 (213)
Q Consensus 77 pP~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~ 110 (213)
-|.+...+.-|.+.|..|..|+-.|.|-.+|+..
T Consensus 22 d~e~~atls~i~eli~~IN~kIl~lNKKsKKn~~ 55 (71)
T PF06015_consen 22 DSEFAATLSAIKELISQINLKILALNKKSKKNTR 55 (71)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhhHhhccCC
Confidence 4668889999999999999999999999999875
No 62
>cd07601 BAR_APPL The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains, and are localized to cytoplasmic membranes. Vertebrates contain two APPL proteins, APPL1 and APPL2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.99 E-value=4.1e+02 Score=23.03 Aligned_cols=64 Identities=13% Similarity=0.213 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----------------hhhc----CCchhHHHHHHHHHHHHHHHHHHHHHHH---
Q 028123 120 QHAIESLTQEITNILKRSEKRLQQ-----------------LSAA----GPSEDSNVRKNVQRSLATDLQNLSMELR--- 175 (213)
Q Consensus 120 e~eIE~lT~eIt~lf~~~e~~Ik~-----------------i~~~----~~~~E~~i~kNvq~sLA~kLQ~LS~~FR--- 175 (213)
|..+..|..-|.++++.|...+.. +... ++++|..+ ++-...+.-|++++..+-
T Consensus 8 E~d~~~L~~~~~kL~K~c~~~~~a~~~~~~A~~~F~~~L~ef~~~~f~~~~dDe~~~--~~l~kFs~~l~El~~~~~~L~ 85 (215)
T cd07601 8 EEDALQLSSYMNQLLQACKRVYDAQNELKSATQALSKKLGEYEKQKFELGRDDEILV--STLKQFSKVVDELSTMHSTLS 85 (215)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555554443 2211 33444443 688889999999886543
Q ss_pred -HHHHHHHHHH
Q 028123 176 -KKQSTYLKRL 185 (213)
Q Consensus 176 -k~Q~~YL~~L 185 (213)
..|...+..|
T Consensus 86 ~q~~~~l~~pL 96 (215)
T cd07601 86 SQLADTVLHPI 96 (215)
T ss_pred HHHHHHHHHHH
Confidence 3444444444
No 63
>PF08868 YugN: YugN-like family; InterPro: IPR014967 This entry contains proteins related to Bacillus subtilis YugN, they are functionally uncharacterised. ; PDB: 2R5X_A 2PWW_A.
Probab=22.85 E-value=65 Score=26.06 Aligned_cols=56 Identities=20% Similarity=0.458 Sum_probs=24.9
Q ss_pred CCCCCceeecccccCCCCCCCCCCCCCCCCCCC--C---Cc------cccCCCchHHhHHHHHHHHHHHHHHH
Q 028123 36 SCSGPVIELVNSSLLNPNRNYAPLSTEDPGNSS--R---GA------VTVGLPPAWVDVSEEIATNVQRARTK 97 (213)
Q Consensus 36 ~~~~~~ie~~~~~l~~~~~~~~~l~~~d~~~~~--~---~~------~~~~lpP~Wvd~~eei~~~l~~Ik~k 97 (213)
.+.+++|.+. +|+|. +.|-|...++..... . ++ .+-..|+.||+..+++ +..|...
T Consensus 64 d~~~A~v~l~-~P~l~--kH~Yp~G~dy~a~~~~~~~~fnQF~eP~d~D~~~p~~~v~~~~~~---l~ele~~ 130 (132)
T PF08868_consen 64 DSPDAVVKLG-TPFLG--KHYYPHGVDYEASPGNFSALFNQFQEPVDKDAEFPEKWVDKGEEL---LKELEDE 130 (132)
T ss_dssp TSTTEEEEE----EEE--EEETTT---ST------------------T-B-EEHHHHHHHHHH---HHHHHHH
T ss_pred CCCCeEEEEC-CceEE--EeeCCCCcCcccccccccccccccccccCCCCcCCHHHHHHHHHH---HHHHHHh
Confidence 4567788887 46665 334444433321000 0 00 1235899999886654 4444443
No 64
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=22.04 E-value=3.1e+02 Score=24.49 Aligned_cols=36 Identities=19% Similarity=0.135 Sum_probs=27.6
Q ss_pred chHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCC
Q 028123 78 PAWVDVSEEIATNVQRARTKMAELARAHAKALMPSF 113 (213)
Q Consensus 78 P~Wvd~~eei~~~l~~Ik~km~eL~kLh~K~L~p~F 113 (213)
-.|.+..++|.++-.+|.+.=.+|+.+.+.+-.+..
T Consensus 187 ~~y~~l~~~i~~lE~~VaeQ~~qL~~~n~~~~~~~~ 222 (259)
T PF08657_consen 187 QRYNQLSNSIAYLEAEVAEQEAQLERMNRSSSDSSS 222 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccc
Confidence 468888888888888888888888888776554433
No 65
>PF08655 DASH_Ask1: DASH complex subunit Ask1; InterPro: IPR013964 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=21.55 E-value=1.7e+02 Score=20.91 Aligned_cols=24 Identities=25% Similarity=0.299 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028123 119 DQHAIESLTQEITNILKRSEKRLQ 142 (213)
Q Consensus 119 ee~eIE~lT~eIt~lf~~~e~~Ik 142 (213)
.|++|-.+-++|...|.+|++.|-
T Consensus 4 ldQ~iTl~LQeID~N~s~~~~iit 27 (66)
T PF08655_consen 4 LDQEITLLLQEIDSNFSRCHRIIT 27 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888899999999998876
No 66
>PF06112 Herpes_capsid: Gammaherpesvirus capsid protein; InterPro: IPR009299 This family consists of several Gammaherpesvirus capsid proteins. The exact function of this family is unknown.; GO: 0019028 viral capsid
Probab=21.48 E-value=96 Score=25.61 Aligned_cols=27 Identities=41% Similarity=0.484 Sum_probs=19.9
Q ss_pred HHHHHHHH------HHHHHHHHHHHHHHHHhhh
Q 028123 163 LATDLQNL------SMELRKKQSTYLKRLRQQK 189 (213)
Q Consensus 163 LA~kLQ~L------S~~FRk~Q~~YL~~Lk~r~ 189 (213)
|+.+++.| ..+|+..|++||-+|.-+.
T Consensus 24 lv~~~~~L~q~Nms~~~y~~a~r~YLVFL~Aq~ 56 (147)
T PF06112_consen 24 LVAKLQALPQNNMSDAEYREAQRNYLVFLIAQH 56 (147)
T ss_pred HHHHHHhhccCCCCHHHHHHhhhchhhhhhHHH
Confidence 45555555 3589999999999987654
No 67
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=20.92 E-value=3.3e+02 Score=19.67 Aligned_cols=23 Identities=4% Similarity=0.112 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 028123 82 DVSEEIATNVQRARTKMAELARA 104 (213)
Q Consensus 82 d~~eei~~~l~~Ik~km~eL~kL 104 (213)
+..+++...+..|...|..|..+
T Consensus 37 ~~~~~~~~l~k~~~~~l~~l~~~ 59 (102)
T PF14523_consen 37 QLIQKTNQLIKEISELLKKLNSL 59 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666666666666666655
No 68
>PRK10132 hypothetical protein; Provisional
Probab=20.69 E-value=4.1e+02 Score=20.56 Aligned_cols=49 Identities=12% Similarity=0.283 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHHHHHHH
Q 028123 117 KEDQHAIESLTQEITNILKRSEKRLQQLSAAGPSEDSNVRKNVQRSLAT 165 (213)
Q Consensus 117 ~~ee~eIE~lT~eIt~lf~~~e~~Ik~i~~~~~~~E~~i~kNvq~sLA~ 165 (213)
.+.+.++|.|..+|..+....+..++........+=..++..+...|..
T Consensus 8 ~~~~~q~e~L~~Dl~~L~~~le~ll~~~~~~~~~~~~~lR~r~~~~L~~ 56 (108)
T PRK10132 8 NDVDDGVQDIQNDVNQLADSLESVLKSWGSDAKGEAEAARRKAQALLKE 56 (108)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 3456678888888888888888888776654433334555555544443
No 69
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=20.25 E-value=9.4e+02 Score=24.64 Aligned_cols=55 Identities=18% Similarity=0.344 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcC---CchhHHHHHHHH------HHHHHHHHHHHHHHHH
Q 028123 122 AIESLTQEITNILKRSEKRLQQLSAAG---PSEDSNVRKNVQ------RSLATDLQNLSMELRK 176 (213)
Q Consensus 122 eIE~lT~eIt~lf~~~e~~Ik~i~~~~---~~~E~~i~kNvq------~sLA~kLQ~LS~~FRk 176 (213)
.||.....=..+.++|+..++.+.... +..|..+++-++ +.|+..|..+....++
T Consensus 601 R~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~l~~l~~si~~lk~k~~~ 664 (717)
T PF10168_consen 601 RYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQLQDLKASIEQLKKKLDY 664 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555554556677777777775532 455666655544 3344444444444333
Done!