Query 032069
Match_columns 148
No_of_seqs 79 out of 81
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:11:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032069.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032069hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3304 Surfeit family protein 100.0 1.9E-56 4.1E-61 346.2 17.5 140 1-142 1-147 (148)
2 PF06179 Med22: Surfeit locus 100.0 2.2E-31 4.7E-36 195.6 2.9 108 24-131 1-109 (109)
3 KOG0977 Nuclear envelope prote 71.1 71 0.0015 30.4 11.2 110 18-133 237-367 (546)
4 PF09753 Use1: Membrane fusion 69.8 44 0.00095 27.6 8.7 58 72-138 168-225 (251)
5 PF06160 EzrA: Septation ring 61.0 1.4E+02 0.0031 27.8 12.3 122 15-136 100-236 (560)
6 PRK01919 tatB sec-independent 54.1 1.2E+02 0.0026 24.8 8.5 64 68-135 24-88 (169)
7 KOG0860 Synaptobrevin/VAMP-lik 54.0 28 0.00061 26.8 4.5 39 4-44 16-54 (116)
8 PF02601 Exonuc_VII_L: Exonucl 53.2 1.4E+02 0.003 25.2 13.7 40 7-47 132-171 (319)
9 PF08580 KAR9: Yeast cortical 52.9 2.1E+02 0.0045 27.8 11.0 99 30-142 60-160 (683)
10 cd07590 BAR_Bin3 The Bin/Amphi 48.1 1.6E+02 0.0035 24.5 10.5 84 19-107 21-122 (225)
11 PRK04654 sec-independent trans 47.6 1.6E+02 0.0036 24.9 8.4 63 67-134 23-87 (214)
12 PRK14139 heat shock protein Gr 47.2 1.3E+02 0.0029 24.5 7.7 20 69-88 81-100 (185)
13 PF15463 ECM11: Extracellular 45.3 33 0.00071 26.2 3.7 60 67-126 72-137 (139)
14 PRK00286 xseA exodeoxyribonucl 44.2 2.3E+02 0.005 25.1 14.3 38 7-45 249-286 (438)
15 PRK11032 hypothetical protein; 42.7 1.8E+02 0.0038 23.4 8.2 65 69-138 4-69 (160)
16 PF06266 HrpF: HrpF protein; 40.4 1.4E+02 0.003 21.4 8.4 66 22-88 5-70 (74)
17 KOG0977 Nuclear envelope prote 38.8 3.6E+02 0.0078 25.8 14.7 108 27-134 39-195 (546)
18 PF05565 Sipho_Gp157: Siphovir 37.8 2E+02 0.0042 22.5 10.6 101 34-145 5-110 (162)
19 PF11074 DUF2779: Domain of un 35.5 90 0.0019 23.8 4.7 66 72-143 60-128 (130)
20 TIGR00237 xseA exodeoxyribonuc 35.1 3.4E+02 0.0074 24.5 13.1 37 7-44 244-280 (432)
21 PF06932 DUF1283: Protein of u 34.4 88 0.0019 23.0 4.3 33 6-38 8-42 (85)
22 PF09340 NuA4: Histone acetylt 34.4 1.3E+02 0.0029 21.2 5.2 30 104-137 5-34 (80)
23 PRK07033 hypothetical protein; 34.3 72 0.0016 28.9 4.6 47 65-111 45-91 (427)
24 COG4847 Uncharacterized protei 34.3 2.1E+02 0.0045 21.7 7.0 52 67-118 50-101 (103)
25 PF09278 MerR-DNA-bind: MerR, 33.5 1.3E+02 0.0028 19.1 7.3 50 70-121 7-56 (65)
26 COG2841 Uncharacterized protei 33.1 1.4E+02 0.0031 21.3 5.1 53 78-130 7-68 (72)
27 PHA00743 helix-turn-helix prot 33.0 1.5E+02 0.0033 19.9 5.1 20 75-94 10-29 (51)
28 PF15469 Sec5: Exocyst complex 32.1 2.4E+02 0.0051 21.8 10.6 75 66-141 76-150 (182)
29 PF13324 GCIP: Grap2 and cycli 32.1 1.6E+02 0.0035 24.5 6.2 58 23-81 61-118 (275)
30 cd00890 Prefoldin Prefoldin is 31.9 1.9E+02 0.0041 20.6 6.2 39 96-134 89-127 (129)
31 PF06008 Laminin_I: Laminin Do 31.0 3E+02 0.0066 22.7 9.9 18 28-45 50-67 (264)
32 PF09787 Golgin_A5: Golgin sub 29.9 3.9E+02 0.0085 24.5 8.7 52 38-94 218-269 (511)
33 cd07591 BAR_Rvs161p The Bin/Am 29.1 3.3E+02 0.0071 22.4 9.4 29 19-47 21-49 (224)
34 PF14942 Muted: Organelle biog 28.9 2.9E+02 0.0062 21.7 7.9 13 28-40 19-31 (145)
35 PF04880 NUDE_C: NUDE protein, 28.7 45 0.00099 26.9 2.2 41 90-131 3-47 (166)
36 PHA02769 hypothetical protein; 28.5 25 0.00054 27.8 0.7 10 1-10 31-40 (154)
37 PLN02867 Probable galacturonos 27.8 4.1E+02 0.0089 25.4 8.5 40 4-43 21-61 (535)
38 PF07295 DUF1451: Protein of u 27.4 2.1E+02 0.0046 22.5 5.7 44 92-135 13-56 (146)
39 PTZ00007 (NAP-L) nucleosome as 27.3 1.7E+02 0.0037 26.1 5.7 40 93-136 33-72 (337)
40 PF05508 Ran-binding: RanGTP-b 27.2 4.5E+02 0.0097 23.4 8.3 91 19-134 45-137 (302)
41 cd00632 Prefoldin_beta Prefold 27.1 2.4E+02 0.0052 20.2 6.6 48 86-133 55-102 (105)
42 PF10635 DisA-linker: DisA bac 26.6 3.2E+02 0.0069 21.5 7.2 60 12-88 9-68 (145)
43 PF10602 RPN7: 26S proteasome 25.6 2.3E+02 0.0049 22.3 5.6 45 93-137 3-48 (177)
44 PRK08126 hypothetical protein; 24.9 1.4E+02 0.0031 27.2 4.9 43 68-110 63-105 (432)
45 KOG2678 Predicted membrane pro 24.8 2.8E+02 0.0061 24.0 6.3 58 72-138 156-213 (244)
46 cd04779 HTH_MerR-like_sg4 Heli 24.1 3.3E+02 0.0071 20.8 7.8 48 80-127 59-107 (134)
47 PF10018 Med4: Vitamin-D-recep 24.1 3.7E+02 0.008 21.3 9.8 67 72-141 3-69 (188)
48 PF01920 Prefoldin_2: Prefoldi 24.0 1.6E+02 0.0035 20.3 4.1 46 87-136 55-100 (106)
49 PF11221 Med21: Subunit 21 of 23.5 3.4E+02 0.0073 20.7 14.3 106 24-135 4-138 (144)
50 PRK12817 flgG flagellar basal 23.3 1.9E+02 0.0042 24.1 5.1 26 56-84 234-259 (260)
51 PF05700 BCAS2: Breast carcino 23.0 3.6E+02 0.0078 22.0 6.5 50 91-140 140-189 (221)
52 PRK11677 hypothetical protein; 22.8 1.6E+02 0.0035 22.9 4.2 29 116-144 58-86 (134)
53 PF02996 Prefoldin: Prefoldin 22.6 2.9E+02 0.0062 19.6 5.9 39 97-135 80-118 (120)
54 PF00512 HisKA: His Kinase A ( 21.1 2.1E+02 0.0045 17.9 3.9 29 22-50 39-67 (68)
55 KOG1507 Nucleosome assembly pr 20.7 2.7E+02 0.0059 25.4 5.7 40 93-136 69-108 (358)
56 PF15191 Synaptonemal_3: Synap 20.4 3.7E+02 0.0081 20.1 5.5 61 70-137 8-68 (95)
57 PRK08609 hypothetical protein; 20.3 5.3E+02 0.011 24.2 7.8 67 29-108 3-69 (570)
58 cd00584 Prefoldin_alpha Prefol 20.2 3.5E+02 0.0076 19.6 6.2 37 97-133 90-126 (129)
59 PF11945 WASH_WAHD: WAHD domai 20.2 3.5E+02 0.0075 23.7 6.2 44 70-121 24-70 (297)
No 1
>KOG3304 consensus Surfeit family protein 5 [General function prediction only]
Probab=100.00 E-value=1.9e-56 Score=346.17 Aligned_cols=140 Identities=43% Similarity=0.676 Sum_probs=134.6
Q ss_pred CCC--CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhccCCC-----CccchHHHHHHHhHHHHHHHhH
Q 032069 1 MNK--GAGSGPTAAAAAAAAQKQKTLMQRVETDIASIVDNFSQLVNVARVNDP-----PVRNSQESFMMEMRASRMVQAA 73 (148)
Q Consensus 1 ~~~--~~~~~~~~~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik~Akv~d~-----~~~~~~e~fem~vrAa~mVrAa 73 (148)
|++ |||+||+++|+.++.+++ |++||++||+||+|||++||++|||+++ +++++|+.|+|+|||++|||||
T Consensus 1 M~~g~GG~s~~~~~ask~al~k~--~~~Rl~ddIkS~~dNF~~Ii~~Akv~~~~q~~k~tq~~q~a~eM~vRAa~mVrA~ 78 (148)
T KOG3304|consen 1 MAQGGGGGSRPALPASKEALLKS--YNKRLKDDIKSIMDNFTEIIKTAKVEDETQVSKATQGEQDAYEMHVRAANMVRAG 78 (148)
T ss_pred CCCCCCCCCccccHHHHHHHHHH--HHHHHHHhHHHHHHhHHHHHHHHhcCChhhhccccccchHHHHHHHHHHHHHHHH
Confidence 788 456889999998888875 9999999999999999999999999998 7999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Q 032069 74 DSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSSGHRT 142 (148)
Q Consensus 74 EsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS~~k~ 142 (148)
|||||||+|||||+|||||+++|++|++++.+|++++++|+++|+.|+||++.+|||||+|||+|.||.
T Consensus 79 dsLlKLvsdLKqflIl~dFhsln~~I~q~~aq~~~t~~e~~r~l~~l~de~s~~L~eLE~eyyss~~r~ 147 (148)
T KOG3304|consen 79 DSLLKLVSDLKQFLILNDFHSLNEAIDQRNAQFRQTQEECDRKLITLRDEVSIDLYELEEEYYSSAYRS 147 (148)
T ss_pred HHHHHHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999999999999999999975
No 2
>PF06179 Med22: Surfeit locus protein 5 subunit 22 of Mediator complex; PDB: 3R84_P 3RJ1_K.
Probab=99.96 E-value=2.2e-31 Score=195.65 Aligned_cols=108 Identities=36% Similarity=0.689 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHHhHHHHHHhhccCCC-CccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHH
Q 032069 24 LMQRVETDIASIVDNFSQLVNVARVNDP-PVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQR 102 (148)
Q Consensus 24 l~~Rl~~dI~slldnF~~Iik~Akv~d~-~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~ 102 (148)
|++|+|.+|.+|++||.+||++|+..+. +++++++.|+|+|+|++||||||+||+||++||++||||||+.+|+.++.+
T Consensus 1 Ll~rld~~i~~ll~~f~~li~~A~~~~~~~~~~a~~~~~m~~~a~~lira~e~LL~Ltr~LKe~wll~d~~~~~e~~~~~ 80 (109)
T PF06179_consen 1 LLQRLDQDIESLLDNFRELIKLAKNQNSDPTQAAQESFQMEVRAAQLIRAAEDLLSLTRELKELWLLGDFPPLNEDIDEQ 80 (109)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTB--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHB-----------
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccchhHHHH
Confidence 6899999999999999999999995543 689999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 103 TNEFNQQAEKTDRMLARIGEEAAASLKEL 131 (148)
Q Consensus 103 ~~~l~~~~e~~d~~L~~l~del~~~L~eL 131 (148)
...+...+++|++++..|++++..+|+||
T Consensus 81 ~~~~~~~~~~~~~~l~~l~~~~~~~l~el 109 (109)
T PF06179_consen 81 EERLDQEQEEVDKLLNALRDELMRELAEL 109 (109)
T ss_dssp ------TT------THHHHSTTTTTTT--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999987
No 3
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=71.06 E-value=71 Score=30.41 Aligned_cols=110 Identities=18% Similarity=0.261 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHH---------HHHhHHHHHHHHHHHHHH-H
Q 032069 18 AQKQKTLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASR---------MVQAADSLLKLVSELKQT-A 87 (148)
Q Consensus 18 ~q~~~sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~---------mVrAaEsLLkLvseLKq~-l 87 (148)
+...+-|...|..-|+-|-+.|..+++..|-+ ....|+-.++..+ ...+=|.|+++-+.+=.. .
T Consensus 237 ~~~r~~F~~eL~~Ai~eiRaqye~~~~~nR~d------iE~~Y~~kI~~i~~~~~~~~~~~~~~rEEl~~~R~~i~~Lr~ 310 (546)
T KOG0977|consen 237 ADNREYFKNELALAIREIRAQYEAISRQNRKD------IESWYKRKIQEIRTSAERANVEQNYAREELRRIRSRISGLRA 310 (546)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHhHHH------HHHHHHHHHHHHHhhhccccchhHHHHHHHHHHHhcccchhh
Confidence 34556788899999999999999999888743 2234544444433 233456666665443221 2
Q ss_pred hhcCchhhhHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 88 IFSGFASLNDHVEQRTNEFNQ-----------QAEKTDRMLARIGEEAAASLKELEA 133 (148)
Q Consensus 88 iL~Df~slne~i~~~~~~l~~-----------~~e~~d~~L~~l~del~~~L~eLEe 133 (148)
=|+|.++.|.....++..|+- .-.+-+..+..||+||...+-||+.
T Consensus 311 klselE~~n~~L~~~I~dL~~ql~e~~r~~e~~L~~kd~~i~~mReec~~l~~Elq~ 367 (546)
T KOG0977|consen 311 KLSELESRNSALEKRIEDLEYQLDEDQRSFEQALNDKDAEIAKMREECQQLSVELQK 367 (546)
T ss_pred hhccccccChhHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 367777777777777665544 4467788999999999999999986
No 4
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=69.81 E-value=44 Score=27.62 Aligned_cols=58 Identities=21% Similarity=0.398 Sum_probs=47.2
Q ss_pred hHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032069 72 AADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSS 138 (148)
Q Consensus 72 AaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS 138 (148)
=+++|++|++.||+..+ .++..+..-...+....+..|+.+..+..+-.. |+++++.+
T Consensus 168 L~~em~~La~~LK~~s~-----~~~~~l~~D~~~L~~~~~~~d~n~~~l~~~~~r----l~~~~~~~ 225 (251)
T PF09753_consen 168 LTEEMLSLARQLKENSL-----AFSQILKEDNKVLDRTEEGLDRNLSSLKRESKR----LKEHSSKS 225 (251)
T ss_pred HHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhc
Confidence 57999999999999876 468888888889998889999998888877554 67766544
No 5
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=61.02 E-value=1.4e+02 Score=27.75 Aligned_cols=122 Identities=16% Similarity=0.306 Sum_probs=71.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHH-----HHhHHHHHHHhHHHHHHHHHHHH-----
Q 032069 15 AAAAQKQKTLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFM-----MEMRASRMVQAADSLLKLVSELK----- 84 (148)
Q Consensus 15 ~~~~q~~~sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fe-----m~vrAa~mVrAaEsLLkLvseLK----- 84 (148)
-.+.+.-+.....++++|..|++.+.+|+..-.-+........+.|+ +.-...+.=.|.+.|-+-..+|-
T Consensus 100 ~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~ 179 (560)
T PF06160_consen 100 KQAIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSE 179 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHH
Confidence 33445556788899999999999999999886644332333333331 12222223344444444444332
Q ss_pred --HHHhhcCchhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032069 85 --QTAIFSGFASLN---DHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYY 136 (148)
Q Consensus 85 --q~liL~Df~sln---e~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYY 136 (148)
+.--=|||-.-. ..+......|...-+++=..+..+..++-..|.||++-|=
T Consensus 180 f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~ 236 (560)
T PF06160_consen 180 FEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYR 236 (560)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHH
Confidence 222223442222 2344445566666677777888888888888888887663
No 6
>PRK01919 tatB sec-independent translocase; Provisional
Probab=54.12 E-value=1.2e+02 Score=24.79 Aligned_cols=64 Identities=14% Similarity=0.210 Sum_probs=43.4
Q ss_pred HHHHhHHHHHHHHHHHHHHHhhcCc-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 68 RMVQAADSLLKLVSELKQTAIFSGF-ASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHY 135 (148)
Q Consensus 68 ~mVrAaEsLLkLvseLKq~liL~Df-~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeY 135 (148)
+|=.++.+|=+++..+|.+. +|| ..+++.++ ..++++...+.+.....+.+.+...+.+++.+.
T Consensus 24 kLP~~aRtlGk~i~k~Rr~~--~d~K~ev~~E~e--~dElrk~~~~~e~~~~~v~~si~~~~~~~~~~~ 88 (169)
T PRK01919 24 RLPRVARTAGALFGRAQRYI--NDVKAEVSREIE--LDELRKMKTDFESAARDVENTIHDNLSEHESDL 88 (169)
T ss_pred HhHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 44566777777777777764 565 45555553 346666667777777778888888777777653
No 7
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.01 E-value=28 Score=26.84 Aligned_cols=39 Identities=21% Similarity=0.441 Sum_probs=28.4
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 032069 4 GAGSGPTAAAAAAAAQKQKTLMQRVETDIASIVDNFSQLVN 44 (148)
Q Consensus 4 ~~~~~~~~~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik 44 (148)
|||.|| ...-.+.++-....+.+|+=|.=|.+|+.-++.
T Consensus 16 ~g~~~~--~~~~~~~~k~~~tq~QvdeVv~IMr~NV~KVlE 54 (116)
T KOG0860|consen 16 GGGDGP--PPNNTANDKLQQTQAQVDEVVDIMRENVEKVLE 54 (116)
T ss_pred CCCCCC--CCcchhhHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 444477 222334667778888999999999999999883
No 8
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=53.24 E-value=1.4e+02 Score=25.15 Aligned_cols=40 Identities=23% Similarity=0.306 Sum_probs=27.7
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhc
Q 032069 7 SGPTAAAAAAAAQKQKTLMQRVETDIASIVDNFSQLVNVAR 47 (148)
Q Consensus 7 ~~~~~~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik~Ak 47 (148)
+-|||||-.+..... .+..+|+.--..|...+.+.+...+
T Consensus 132 ~TPtaaAe~~~~~~~-~~~~~l~~~~~~l~~~~~~~l~~~~ 171 (319)
T PF02601_consen 132 PTPTAAAELIVPDRR-ELLQRLDELRQRLNRAMRNRLQRKR 171 (319)
T ss_pred CCHHHHHHHHhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 668888776655444 6777777777777777777766544
No 9
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=52.89 E-value=2.1e+02 Score=27.82 Aligned_cols=99 Identities=21% Similarity=0.217 Sum_probs=49.3
Q ss_pred HHHHHHHHhHHHHHHhh--ccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHH
Q 032069 30 TDIASIVDNFSQLVNVA--RVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFN 107 (148)
Q Consensus 30 ~dI~slldnF~~Iik~A--kv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~ 107 (148)
++|.+++-.|..||+.- .++|.. .-.|-.. -.-.+...+..+ ..++|..++ .+=+.++-.. +|+
T Consensus 60 ~~ID~ai~~~l~lIe~~v~~ie~~q--~r~di~~---~~~dl~e~vsqm---~~~vK~~L~-----~vK~qveiAm-E~~ 125 (683)
T PF08580_consen 60 EEIDSAISRFLDLIEVYVSAIEDLQ--LREDIAN---SLFDLIEEVSQM---ELDVKKTLI-----SVKKQVEIAM-EWE 125 (683)
T ss_pred HHHHHHHHHHHHHHHhhcccccccc--ccccccc---cHHHHHHHHHHH---HHHHHHHHH-----HHHHHHHHHH-hHH
Confidence 56667777777777763 343311 1001000 111222233222 226666554 2223333322 333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Q 032069 108 QQAEKTDRMLARIGEEAAASLKELEAHYYSSGHRT 142 (148)
Q Consensus 108 ~~~e~~d~~L~~l~del~~~L~eLEeeYYsS~~k~ 142 (148)
+.-..+=.-|...-|++....+|+||.=++|..+.
T Consensus 126 EL~~~vlg~l~~EIe~~~~~vfemeE~R~~Sp~~~ 160 (683)
T PF08580_consen 126 ELWNDVLGDLDNEIEECIRLVFEMEEKRHSSPVRH 160 (683)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCccc
Confidence 33333333444455677888999999999998765
No 10
>cd07590 BAR_Bin3 The Bin/Amphiphysin/Rvs (BAR) domain of Bridging integrator 3. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Bridging integrator 3 (Bin3) is widely expressed in many tissues except in the brain. It plays roles in regulating filamentous actin localization and in cell division. In humans, the Bin3 gene is located in chromosome 8p21.3, a region that is implicated in cancer suppression. Homozygous inactivation of the Bin3 gene in mice led to the development of cataracts and an increased likelihood of lymphomas during aging, suggesting a role for Bin3 in lens development and cancer suppression. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=48.08 E-value=1.6e+02 Score=24.54 Aligned_cols=84 Identities=14% Similarity=0.280 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhc-cCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHH----------
Q 032069 19 QKQKTLMQRVETDIASIVDNFSQLVNVAR-VNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTA---------- 87 (148)
Q Consensus 19 q~~~sl~~Rl~~dI~slldnF~~Iik~Ak-v~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~l---------- 87 (148)
+..++--+||-.|.+.-+|-...+.++.+ |.+ +..+.|.-+-. .....+++..-.++.+|.++|
T Consensus 21 ~~lE~~~~kL~Ke~K~Y~dav~~m~~a~~~is~----~l~~~~~~~~~-~~~~~~~e~y~~~~~~l~~~~~~~~~~~~~~ 95 (225)
T cd07590 21 QQLESTTKKLYKDMKKYIEAVLALSKAEQRLSQ----DLASGPLCEDN-DELRNLVEALDSVTTQLDKTVQELVNLIQKT 95 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH----HHHhcccCCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677888888888888877776542 111 11111111111 112334444444444444321
Q ss_pred -------hhcCchhhhHHHHHHHHHHH
Q 032069 88 -------IFSGFASLNDHVEQRTNEFN 107 (148)
Q Consensus 88 -------iL~Df~slne~i~~~~~~l~ 107 (148)
.++-|+.||+.|..|...+.
T Consensus 96 vl~Pl~~~~s~f~~I~~~I~KR~~Kl~ 122 (225)
T cd07590 96 FIEPLKRLRSVFPSVNAAIKRREQSLQ 122 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 35789999999999987553
No 11
>PRK04654 sec-independent translocase; Provisional
Probab=47.62 E-value=1.6e+02 Score=24.89 Aligned_cols=63 Identities=14% Similarity=0.226 Sum_probs=42.6
Q ss_pred HHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 67 SRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQR--TNEFNQQAEKTDRMLARIGEEAAASLKELEAH 134 (148)
Q Consensus 67 a~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~--~~~l~~~~e~~d~~L~~l~del~~~L~eLEee 134 (148)
.+|=.++..|-+.+..+|.+ |..+-+.+.+. ..++++.-.+....+..+++++.....+|++.
T Consensus 23 erLPe~aRtlGk~irk~R~~-----~~~vk~El~~El~~~ELrk~l~~~~~~i~~~~~~lk~~~~el~q~ 87 (214)
T PRK04654 23 ERLPKAARFAGLWVRRARMQ-----WDSVKQELERELEAEELKRSLQDVQASLREAEDQLRNTQQQVEQG 87 (214)
T ss_pred hHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777888888888864 33333333332 34666666667778888888998888888853
No 12
>PRK14139 heat shock protein GrpE; Provisional
Probab=47.23 E-value=1.3e+02 Score=24.51 Aligned_cols=20 Identities=25% Similarity=0.295 Sum_probs=14.9
Q ss_pred HHHhHHHHHHHHHHHHHHHh
Q 032069 69 MVQAADSLLKLVSELKQTAI 88 (148)
Q Consensus 69 mVrAaEsLLkLvseLKq~li 88 (148)
.-..+.+||-++..|...+-
T Consensus 81 ~~~~~~~LLpv~DnLerAl~ 100 (185)
T PRK14139 81 IESFAESLLPVKDSLEAALA 100 (185)
T ss_pred HHHHHHHHhhHHhHHHHHHh
Confidence 34556788889988888763
No 13
>PF15463 ECM11: Extracellular mutant protein 11
Probab=45.31 E-value=33 Score=26.25 Aligned_cols=60 Identities=27% Similarity=0.447 Sum_probs=44.9
Q ss_pred HHHHHhHHHHHH----HHHHHHHH--HhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 67 SRMVQAADSLLK----LVSELKQT--AIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAA 126 (148)
Q Consensus 67 a~mVrAaEsLLk----LvseLKq~--liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~ 126 (148)
.-=..+|+.|++ |+..||+. ....-|..++..|..|...++.+...++++|..|+..-..
T Consensus 72 ~eWe~~Gd~~l~qf~~l~~kl~~~R~~~r~~~~~fe~eI~~R~eav~~~~~~l~~kL~~mk~~G~e 137 (139)
T PF15463_consen 72 DEWEEAGDWFLEQFSELMQKLKEARRKLRKKFAVFEDEINRRAEAVRAQGEQLDRKLEKMKEGGKE 137 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 333667777664 44445432 3456678899999999999999999999999999986543
No 14
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=44.18 E-value=2.3e+02 Score=25.11 Aligned_cols=38 Identities=24% Similarity=0.327 Sum_probs=25.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 032069 7 SGPTAAAAAAAAQKQKTLMQRVETDIASIVDNFSQLVNV 45 (148)
Q Consensus 7 ~~~~~~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik~ 45 (148)
+-|||||..+..... .+.++|+.--..|...+...+..
T Consensus 249 ~TPtaaae~~~~~~~-e~~q~Ld~l~~rL~~a~~~~L~~ 286 (438)
T PRK00286 249 PTPTAAAELAVPDRA-ELLQRLQQLQQRLARAMRRRLEQ 286 (438)
T ss_pred CChHHHHHHhCccHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 679988877665444 56677776666666666666553
No 15
>PRK11032 hypothetical protein; Provisional
Probab=42.71 E-value=1.8e+02 Score=23.39 Aligned_cols=65 Identities=20% Similarity=0.240 Sum_probs=48.6
Q ss_pred HHHhHHHHH-HHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032069 69 MVQAADSLL-KLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSS 138 (148)
Q Consensus 69 mVrAaEsLL-kLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS 138 (148)
.+++.+.|| +++..||.. -..+++.|+...+.+....+-+...+..++.=+.++|.++-..|=.|
T Consensus 4 ~~~~Y~~ll~~v~~~l~~~-----~~~l~~~ve~a~~~~~~~~elT~dEl~lv~~ylkRDL~ef~~~~~~~ 69 (160)
T PRK11032 4 VAQYYRELVASLTERLRNG-----ERDIDALVESARKRVDAAGELTRDEVDLITRAVRRDLEEFARSYEES 69 (160)
T ss_pred HHHHHHHHHHHHHHHHHhC-----HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455556555 334444443 24688889999999999999999999999999999999998855433
No 16
>PF06266 HrpF: HrpF protein; InterPro: IPR009371 The species Pseudomonas syringae encompasses plant pathogens with differing host specificities and corresponding pathovar designations. P. syringae requires the Hrp (type III protein secretion) system, encoded by a 25-kb cluster of hrp and hrc genes, in order to elicit the hypersensitive response (HR) in nonhosts or to be pathogenic in hosts. The exact function of HrpF is unknown but the protein is needed for pathogenicity [].
Probab=40.39 E-value=1.4e+02 Score=21.44 Aligned_cols=66 Identities=20% Similarity=0.169 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHh
Q 032069 22 KTLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAI 88 (148)
Q Consensus 22 ~sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~li 88 (148)
++|.+|||.....=.++..+++--|. ++.+....+--|+...-++.-.-|+...++.-|.|-.+.|
T Consensus 5 ~~LqrrLD~~~~rA~~~~d~aal~a~-e~~s~~D~~AF~ea~~q~s~As~A~~Q~l~vkH~L~KaiI 70 (74)
T PF06266_consen 5 NALQRRLDSQFERAQTNLDDAALNAS-EGFSPEDIQAFNEASMQASVASWAANQELRVKHGLAKAII 70 (74)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHhhh-cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 58999999999999999998665543 2234455666677777777777788888888888876644
No 17
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=38.79 E-value=3.6e+02 Score=25.83 Aligned_cols=108 Identities=17% Similarity=0.300 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHhHHHHHHhhccC-C-----------------CCccchHHHHHHHhHHHH-HHHhH-H-------HHHHH
Q 032069 27 RVETDIASIVDNFSQLVNVARVN-D-----------------PPVRNSQESFMMEMRASR-MVQAA-D-------SLLKL 79 (148)
Q Consensus 27 Rl~~dI~slldnF~~Iik~Akv~-d-----------------~~~~~~~e~fem~vrAa~-mVrAa-E-------sLLkL 79 (148)
|=|.++..|.|.|...|.-.+-= . ..+.+....|+++..++. +|.-. - .+=+|
T Consensus 39 rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl 118 (546)
T KOG0977|consen 39 REKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIEITKL 118 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55677777777777777544311 0 135556677888877654 33332 1 12222
Q ss_pred HHHHHH----------------------HHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 80 VSELKQ----------------------TAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAH 134 (148)
Q Consensus 80 vseLKq----------------------~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEee 134 (148)
-.++|+ .-.|++...=...+..+...+.....++.+...+|++++.....+|++|
T Consensus 119 ~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~E 195 (546)
T KOG0977|consen 119 REELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDE 195 (546)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 222222 2234444444445555666777777777788888888888888887776
No 18
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=37.82 E-value=2e+02 Score=22.49 Aligned_cols=101 Identities=10% Similarity=0.249 Sum_probs=66.1
Q ss_pred HHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHH
Q 032069 34 SIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKT 113 (148)
Q Consensus 34 slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~ 113 (148)
.|-++|.+|...+.=++...+...|+.+- -...+-.-++.+.++|..+ ..-.+.++.....|.....-.
T Consensus 5 el~~~~~~l~~~~e~~~~d~e~~~dtLe~--i~~~~~~K~~~~~~~Ik~~---------ea~~e~~k~E~krL~~rkk~~ 73 (162)
T PF05565_consen 5 ELTDEYLELLELLEEGDLDEEAIADTLES--IEDEIEEKADNIAKVIKNL---------EADIEAIKAEIKRLQERKKSI 73 (162)
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHHH--HHHHHHHHHHHHHHHHHHh---------HHHHHHHHHHHHHHHHHHHHH
Confidence 45666777776654333233333344322 3344555677777777766 345678888888899888889
Q ss_pred HHHHHHHHHHHHHHHHH-----HHHHHhhccCCCCCC
Q 032069 114 DRMLARIGEEAAASLKE-----LEAHYYSSGHRTTQN 145 (148)
Q Consensus 114 d~~L~~l~del~~~L~e-----LEeeYYsS~~k~~~~ 145 (148)
..++..|++-+...+.. ++...|+=.+|.+|+
T Consensus 74 e~~~~~Lk~yL~~~m~~~g~~ki~t~~~tisirk~~~ 110 (162)
T PF05565_consen 74 ENRIDRLKEYLLDAMEAAGIKKIKTPLFTISIRKNPP 110 (162)
T ss_pred HHHHHHHHHHHHHHHHHcCCceeecCceEEEEecCCC
Confidence 99999999988887765 566666655565553
No 19
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=35.51 E-value=90 Score=23.84 Aligned_cols=66 Identities=18% Similarity=0.364 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHH-HHHHhhcC-chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhccCCCC
Q 032069 72 AADSLLKLVSEL-KQTAIFSG-FASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAH-YYSSGHRTT 143 (148)
Q Consensus 72 AaEsLLkLvseL-Kq~liL~D-f~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEee-YYsS~~k~~ 143 (148)
-++.|++.+.+. =-.++.|+ |. ..+.++|.+.-.++...|..|.+-+.+.+.-.-.+ ||....+++
T Consensus 60 ~~~~L~~~i~~~~g~ivvyN~sfE------~~rL~ela~~~p~~~~~l~~I~~r~vDL~~~f~~~~yy~p~~~Gs 128 (130)
T PF11074_consen 60 LIEALIKAIGSIYGSIVVYNKSFE------KTRLKELAELFPDYAEKLNSIIERTVDLLDPFKNHYYYHPDMKGS 128 (130)
T ss_pred HHHHHHHHhhhhcCeEEEechHHH------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhCCEECCCCCCC
Confidence 345566655555 44456666 43 33555555556777778888877776666666665 888777765
No 20
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=35.06 E-value=3.4e+02 Score=24.46 Aligned_cols=37 Identities=24% Similarity=0.399 Sum_probs=23.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 032069 7 SGPTAAAAAAAAQKQKTLMQRVETDIASIVDNFSQLVN 44 (148)
Q Consensus 7 ~~~~~~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik 44 (148)
+-|||||.-+..-.. .+.++|+.--..|...+...+.
T Consensus 244 ~TPtaaae~~~p~~~-el~qrLd~l~~RL~~am~~~L~ 280 (432)
T TIGR00237 244 PTPSAAAEIVSPNQD-ELLQRLDGFNVRLHRAFDTLLH 280 (432)
T ss_pred CCcHHHHHHhCccHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 679988877665443 5666666666666555555554
No 21
>PF06932 DUF1283: Protein of unknown function (DUF1283); InterPro: IPR009700 This family consists of several hypothetical proteins of around 115 residues in length, which seem to be specific to Enterobacteria. The function of the family is unknown.
Probab=34.44 E-value=88 Score=22.98 Aligned_cols=33 Identities=21% Similarity=0.331 Sum_probs=26.6
Q ss_pred CCCchHHHHHHHHHHHHHHHH--HHHHHHHHHHHh
Q 032069 6 GSGPTAAAAAAAAQKQKTLMQ--RVETDIASIVDN 38 (148)
Q Consensus 6 ~~~~~~~~~~~~~q~~~sl~~--Rl~~dI~slldn 38 (148)
|+|-++-.--+|-|.++.|.. +|+..|++-++.
T Consensus 8 ~~gd~alskE~Arq~kEqWn~Tr~LR~KvN~r~EK 42 (85)
T PF06932_consen 8 GSGDNALSKEQARQSKEQWNDTRSLRNKVNKRVEK 42 (85)
T ss_pred CCCcchhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 477888888999999999975 777777776664
No 22
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=34.36 E-value=1.3e+02 Score=21.16 Aligned_cols=30 Identities=23% Similarity=0.383 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 032069 104 NEFNQQAEKTDRMLARIGEEAAASLKELEAHYYS 137 (148)
Q Consensus 104 ~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYs 137 (148)
.++-+...++++.|..| ...+|++|..|..
T Consensus 5 ~~l~~~k~~Le~~L~~l----E~qIy~~Et~YL~ 34 (80)
T PF09340_consen 5 KELLQKKKKLEKDLAAL----EKQIYDKETSYLE 34 (80)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 34445555566666554 4557999999997
No 23
>PRK07033 hypothetical protein; Provisional
Probab=34.28 E-value=72 Score=28.95 Aligned_cols=47 Identities=26% Similarity=0.438 Sum_probs=39.6
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHH
Q 032069 65 RASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAE 111 (148)
Q Consensus 65 rAa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e 111 (148)
-.--||.||--||.|+..|+...-..|...+-+.+......|++...
T Consensus 45 ~~NpLv~AA~pLL~l~~~lr~~~~~~d~~~Lr~~l~~~i~~fe~~~~ 91 (427)
T PRK07033 45 GLNPLVAAANPLLNLIPQIRSTVHHPDPASLREQLLDEIRQFEERAQ 91 (427)
T ss_pred cCCHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 33448999999999999999998888999999998888888875543
No 24
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.27 E-value=2.1e+02 Score=21.74 Aligned_cols=52 Identities=19% Similarity=0.224 Sum_probs=43.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHH
Q 032069 67 SRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLA 118 (148)
Q Consensus 67 a~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~ 118 (148)
...++|-+=|+.++--+|+...+-+=+.+.|.|++..+.+....-++-++|.
T Consensus 50 ~all~a~~ll~~~ivllkel~~~Aeseeake~irq~rq~~EklAg~lTkki~ 101 (103)
T COG4847 50 VALLLANLLLLYLIVLLKELAVIAESEEAKESIRQVRQEVEKLAGDLTKKIE 101 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4568888889999999999999999999999999888888776666655553
No 25
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=33.54 E-value=1.3e+02 Score=19.15 Aligned_cols=50 Identities=10% Similarity=0.129 Sum_probs=29.6
Q ss_pred HHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 70 VQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIG 121 (148)
Q Consensus 70 VrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~ 121 (148)
|+.+-.|=-=+.|+|+++-+.+- =+.........+....+++++++..+.
T Consensus 7 I~~~r~lGfsL~eI~~~l~l~~~--~~~~~~~~~~~l~~~~~~i~~~i~~L~ 56 (65)
T PF09278_consen 7 IRRLRELGFSLEEIRELLELYDQ--GDPPCADRRALLEEKLEEIEEQIAELQ 56 (65)
T ss_dssp HHHHHHTT--HHHHHHHHHHCCS--HCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCCHHHHHHHHhccCC--CCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444443346889999977665 334444555666666677777666554
No 26
>COG2841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.12 E-value=1.4e+02 Score=21.29 Aligned_cols=53 Identities=19% Similarity=0.378 Sum_probs=37.8
Q ss_pred HHHHHHHH-----HHhhcCchhhhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 78 KLVSELKQ-----TAIFSGFASLNDHVEQRTN----EFNQQAEKTDRMLARIGEEAAASLKE 130 (148)
Q Consensus 78 kLvseLKq-----~liL~Df~slne~i~~~~~----~l~~~~e~~d~~L~~l~del~~~L~e 130 (148)
-++|.||. .-||-+..+++..|..... ........+.+.-..++||+...|..
T Consensus 7 ~~is~Lk~~dahF~rLfd~hn~LDd~I~~~E~n~~~~s~~ev~~LKKqkL~LKDEi~~~L~~ 68 (72)
T COG2841 7 DLISKLKANDAHFARLFDKHNELDDRIKRAEGNRQPGSDAEVSNLKKQKLQLKDEIASILQK 68 (72)
T ss_pred HHHHHHhccchHHHHHHHHHhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 35666665 3477778888888877665 33444567778888999999988864
No 27
>PHA00743 helix-turn-helix protein
Probab=33.02 E-value=1.5e+02 Score=19.86 Aligned_cols=20 Identities=25% Similarity=0.471 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHhhcCchh
Q 032069 75 SLLKLVSELKQTAIFSGFAS 94 (148)
Q Consensus 75 sLLkLvseLKq~liL~Df~s 94 (148)
.||++||++|=-.|++..+.
T Consensus 10 eLLs~iheIKID~i~~~~~k 29 (51)
T PHA00743 10 ELLSIIHEIKIDIITQSYDK 29 (51)
T ss_pred HHHHHHHHHhhhhhcccCCH
Confidence 69999999999999988653
No 28
>PF15469 Sec5: Exocyst complex component Sec5
Probab=32.14 E-value=2.4e+02 Score=21.78 Aligned_cols=75 Identities=12% Similarity=0.182 Sum_probs=54.9
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 032069 66 ASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSSGHR 141 (148)
Q Consensus 66 Aa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS~~k 141 (148)
+-.+++...-|..|-+.|++.+--+||..+-..-......+..... ...-+.++.+|+.....++....|.....
T Consensus 76 ~l~~l~r~~flF~LP~~L~~~i~~~dy~~~i~dY~kak~l~~~~~~-~~~vf~~v~~eve~ii~~~r~~l~~~L~~ 150 (182)
T PF15469_consen 76 ALEFLQRNRFLFNLPSNLRECIKKGDYDQAINDYKKAKSLFEKYKQ-QVPVFQKVWSEVEKIIEEFREKLWEKLLS 150 (182)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3357888999999999999999999999988888777777765421 33556666666666666666666655443
No 29
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=32.10 E-value=1.6e+02 Score=24.53 Aligned_cols=58 Identities=26% Similarity=0.241 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHH
Q 032069 23 TLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVS 81 (148)
Q Consensus 23 sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvs 81 (148)
+|.+.|...++++++....++......-. ..+..+.-..-+.+..+--||+.|.++-.
T Consensus 61 tL~~~i~~~v~~lv~~~~~L~~~~~~~~~-s~~~~~~~~~~~~tG~VWeaCd~l~~lp~ 118 (275)
T PF13324_consen 61 TLRKEIRSAVKSLVDSSIQLVEELVSAYG-SSSQSEKNEVLQSTGRVWEACDQLKKLPK 118 (275)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHTTTTS-S
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CcccCccchhHHHHhHHHHHHHHHHHhhh
Confidence 57778888888888888777765443110 01111111233567777788888766543
No 30
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=31.93 E-value=1.9e+02 Score=20.60 Aligned_cols=39 Identities=18% Similarity=0.361 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 96 NDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAH 134 (148)
Q Consensus 96 ne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEee 134 (148)
-+.++.+...+....++++..+..+.+++......|+.-
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 466777778888888888888888888888777777653
No 31
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=30.96 E-value=3e+02 Score=22.65 Aligned_cols=18 Identities=17% Similarity=0.370 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhHHHHHHh
Q 032069 28 VETDIASIVDNFSQLVNV 45 (148)
Q Consensus 28 l~~dI~slldnF~~Iik~ 45 (148)
++.++..|..-+..+-+-
T Consensus 50 ~e~~l~~L~~d~~~L~~k 67 (264)
T PF06008_consen 50 LEKELESLEQDVENLQEK 67 (264)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444433
No 32
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=29.88 E-value=3.9e+02 Score=24.53 Aligned_cols=52 Identities=19% Similarity=0.385 Sum_probs=33.2
Q ss_pred hHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchh
Q 032069 38 NFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFAS 94 (148)
Q Consensus 38 nF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~s 94 (148)
.+.+.+++++..... ..++--+-.++|..+.++-|.| |..||.-.+-++|..
T Consensus 218 e~~~~l~l~~~~~~~--~~~el~~Yk~kA~~iLq~kEkl---I~~LK~~~~~~~~~~ 269 (511)
T PF09787_consen 218 ELQEQLELLKAEGES--EEAELQQYKQKAQRILQSKEKL---IESLKEGCLEEGFDS 269 (511)
T ss_pred HHHHHHHHHHHHhHH--HHHHHHHHHHHHHHHhcCHHHH---HHHHHhccccccccc
Confidence 345555555544322 2334445567799999999965 889999555566654
No 33
>cd07591 BAR_Rvs161p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 161 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 161 (Rvs161p) and Schizosaccharomyces pombe Hob3 (homolog of Bin3). S. cerevisiae Rvs161p plays a role in regulating cell polarity, actin cytoskeleton polarization, vesicle trafficking, endocytosis, bud formation, and the mating response. It forms a heterodimer with another BAR domain protein Rvs167p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. S. pombe Hob3 is important in regulating filamentous actin localization an
Probab=29.08 E-value=3.3e+02 Score=22.41 Aligned_cols=29 Identities=7% Similarity=0.219 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhc
Q 032069 19 QKQKTLMQRVETDIASIVDNFSQLVNVAR 47 (148)
Q Consensus 19 q~~~sl~~Rl~~dI~slldnF~~Iik~Ak 47 (148)
+.++.-.+||-.|++..++++..|.....
T Consensus 21 ~~~e~~~~kL~k~~k~y~da~~~l~~~q~ 49 (224)
T cd07591 21 RTMEKASTKLQKEAKGYLDSLRALTSSQA 49 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566778999999999999999887644
No 34
>PF14942 Muted: Organelle biogenesis, Muted-like protein
Probab=28.88 E-value=2.9e+02 Score=21.69 Aligned_cols=13 Identities=23% Similarity=0.537 Sum_probs=10.7
Q ss_pred HHHHHHHHHHhHH
Q 032069 28 VETDIASIVDNFS 40 (148)
Q Consensus 28 l~~dI~slldnF~ 40 (148)
|...|+.+|++|+
T Consensus 19 IqgEI~~FvkEFE 31 (145)
T PF14942_consen 19 IQGEIRYFVKEFE 31 (145)
T ss_pred HHHHHHHHHHHHH
Confidence 5678889999998
No 35
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=28.69 E-value=45 Score=26.94 Aligned_cols=41 Identities=24% Similarity=0.396 Sum_probs=15.1
Q ss_pred cCc-hhhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 90 SGF-ASLNDHVEQRTN---EFNQQAEKTDRMLARIGEEAAASLKEL 131 (148)
Q Consensus 90 ~Df-~slne~i~~~~~---~l~~~~e~~d~~L~~l~del~~~L~eL 131 (148)
-|| ..+|.+|..+.- ++ ++.+.+.-.+.+|+||+.+.=.||
T Consensus 3 eD~EsklN~AIERnalLE~EL-dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 3 EDFESKLNQAIERNALLESEL-DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355 456777765543 33 334556667778888888776666
No 36
>PHA02769 hypothetical protein; Provisional
Probab=28.53 E-value=25 Score=27.82 Aligned_cols=10 Identities=50% Similarity=0.876 Sum_probs=6.9
Q ss_pred CCCCCCCCch
Q 032069 1 MNKGAGSGPT 10 (148)
Q Consensus 1 ~~~~~~~~~~ 10 (148)
||||||+|.|
T Consensus 31 ~~~ggga~~~ 40 (154)
T PHA02769 31 MVKGGGAGRN 40 (154)
T ss_pred ccccCCCCcc
Confidence 6777777765
No 37
>PLN02867 Probable galacturonosyltransferase
Probab=27.75 E-value=4.1e+02 Score=25.40 Aligned_cols=40 Identities=38% Similarity=0.311 Sum_probs=23.1
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHH
Q 032069 4 GAGSGPTAAAAAAAAQKQKTLMQRVETD-IASIVDNFSQLV 43 (148)
Q Consensus 4 ~~~~~~~~~~~~~~~q~~~sl~~Rl~~d-I~slldnF~~Ii 43 (148)
|+|+|-.|||+++++-+.-+|+.-+-.= +-.++--|.-+.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~f~~ 61 (535)
T PLN02867 21 GKGSGGCAAAAAAAAARRFSGRTLLPVLLLLAIVLPFLFVR 61 (535)
T ss_pred CCCCCcchHHHHHHhhceeeheeHHHHHHHHHHHHHHHHHH
Confidence 5566667777777777776776533221 234455555544
No 38
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=27.43 E-value=2.1e+02 Score=22.47 Aligned_cols=44 Identities=20% Similarity=0.218 Sum_probs=35.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 92 FASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHY 135 (148)
Q Consensus 92 f~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeY 135 (148)
.+.|.+.++...+.+....+-+...+..+++-+.++|.++-+.|
T Consensus 13 ~~~L~~~le~a~e~~~~~~elT~eEl~lv~~ylkRDl~~~a~~~ 56 (146)
T PF07295_consen 13 EEELQEALEKAKEYLVAAGELTREELALVSAYLKRDLEEFARYY 56 (146)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888888888888888888888887643
No 39
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=27.33 E-value=1.7e+02 Score=26.06 Aligned_cols=40 Identities=18% Similarity=0.312 Sum_probs=32.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032069 93 ASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYY 136 (148)
Q Consensus 93 ~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYY 136 (148)
.+|...+..+...|+. +...+..|..++...+++||-.|.
T Consensus 33 ~~Lp~~~~~rv~aL~~----lQ~e~~~le~ef~~ev~~LE~kY~ 72 (337)
T PTZ00007 33 SHLTDEQRETLKKLQL----LQKEFDDLEVEYNAELRKLRSKYE 72 (337)
T ss_pred hhCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888888888864 455677788899999999998885
No 40
>PF05508 Ran-binding: RanGTP-binding protein; InterPro: IPR008812 The small Ras-like GTPase Ran plays an essential role in the transport of macromolecules in and out of the nucleus and has been implicated in spindle and nuclear envelope formation during mitosis in higher eukaryotes. The Saccharomyces cerevisiae ORF YGL164c encoding a novel RanGTP-binding protein, termed Yrb30p was identified. The protein competes with S. cerevisiae RanBP1 (Yrb1p) for binding to the GTP-bound form of S. cerevisiae Ran (Gsp1p) and is, like Yrb1p, able to form trimeric complexes with RanGTP and some of the karyopherins [].
Probab=27.19 E-value=4.5e+02 Score=23.36 Aligned_cols=91 Identities=16% Similarity=0.327 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHH
Q 032069 19 QKQKTLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFASLNDH 98 (148)
Q Consensus 19 q~~~sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~slne~ 98 (148)
.+-+.+++||+.-|+ ++..=-+||+++...-. -.-|+-+.||.+||. |+..+++.
T Consensus 45 ~~l~~lq~~L~~kI~-IvspAIDLIel~aaRGN-------------------t~Lesal~L~~~L~~-----eI~~f~~~ 99 (302)
T PF05508_consen 45 KELEKLQRRLESKIK-IVSPAIDLIELIAARGN-------------------TSLESALPLTKDLRR-----EIDSFDER 99 (302)
T ss_pred HHHHHHHHHHHhhhh-ccccHHHHHHHHHhcCC-------------------ccHHHHHHHHHHHHH-----HHHHHHHH
Confidence 344556666666664 44555566655333210 134888999999995 66677777
Q ss_pred HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 99 VEQRTNEFN--QQAEKTDRMLARIGEEAAASLKELEAH 134 (148)
Q Consensus 99 i~~~~~~l~--~~~e~~d~~L~~l~del~~~L~eLEee 134 (148)
++....... ...+.....+..+-.+|...|..+|+.
T Consensus 100 l~~~~~~~e~~~~~~~~~~~i~~V~~~ik~LL~rId~a 137 (302)
T PF05508_consen 100 LEEAAEKEELSKSSENQKESIKKVERYIKDLLARIDDA 137 (302)
T ss_pred HHHHHHhhhhccCcchhHHHHHHHHHHHHHHHHHHHhh
Confidence 666555222 223455567888888888888888875
No 41
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=27.06 E-value=2.4e+02 Score=20.16 Aligned_cols=48 Identities=6% Similarity=0.129 Sum_probs=39.8
Q ss_pred HHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 86 TAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEA 133 (148)
Q Consensus 86 ~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEe 133 (148)
.+|.-|.+.+...++.+...+....+.++..+..+..++...=.+|++
T Consensus 55 vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~ 102 (105)
T cd00632 55 VLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQ 102 (105)
T ss_pred HHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888899999999999999988888999888888887766655554
No 42
>PF10635 DisA-linker: DisA bacterial checkpoint controller linker region ; InterPro: IPR018906 The DisA protein is a bacterial checkpoint protein that dimerises into an octameric complex. The protein consists of three distinct domains. the first, N-terminal region, from 1-145 is globular and is represented by IPR003390 from INTERPRO; the next 146-289 residues is this domain that consists of an elongated bundle of three alpha helices (alpha-6, alpha-10, and alpha-11), one side of which carries an additional three helices (alpha7-9), thus forming a spine like-linker between domains 1 and 3. The C-terminal residues of domain 3 (IPR000445 from INTERPRO), represent the specific DNA-binding domain. The octameric complex thus has structurally linked nucleotide-binding and DNA-binding HhH domains and the nucleotide-binding domains are bound to a cyclic di-adenosine phosphate such that DisA is a specific di-adenylate cyclase. The di-adenylate cyclase activity is strongly suppressed by binding to branched DNA, but not to duplex or single-stranded DNA, suggesting a role for DisA as a monitor of the presence of stalled replication forks or recombination intermediates via DNA structure-modulated c-di-AMP synthesis []. ; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A.
Probab=26.62 E-value=3.2e+02 Score=21.51 Aligned_cols=60 Identities=13% Similarity=0.252 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHh
Q 032069 12 AAAAAAAQKQKTLMQRVETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAI 88 (148)
Q Consensus 12 ~~~~~~~q~~~sl~~Rl~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~li 88 (148)
+-|-+|.|--+.|+.|++..+..|- .-++=..+.+.| ...+++-+|.++++..|+..+.+
T Consensus 9 ~raNQAl~TLErYr~~ld~~l~~L~--~lE~ed~VTl~D---------------V~~vlqr~emv~RI~~Ei~~yi~ 68 (145)
T PF10635_consen 9 ARANQALQTLERYRARLDQVLTNLS--ALEFEDLVTLRD---------------VASVLQRFEMVRRISEEIERYIV 68 (145)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHTT--BHHH---------------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcc--HHHHcCCccHHH---------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466788888999999998877762 222222223222 34457777777777777777665
No 43
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=25.58 E-value=2.3e+02 Score=22.25 Aligned_cols=45 Identities=13% Similarity=0.203 Sum_probs=28.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhh
Q 032069 93 ASLNDHVEQRTNEFNQQAEKTDR-MLARIGEEAAASLKELEAHYYS 137 (148)
Q Consensus 93 ~slne~i~~~~~~l~~~~e~~d~-~L~~l~del~~~L~eLEeeYYs 137 (148)
.++++-......++.+...+++. +-..+.+++...+.+|=++|++
T Consensus 3 ~w~~~~~~~~~~~~~~Le~elk~~~~n~~kesir~~~~~l~~~~~~ 48 (177)
T PF10602_consen 3 EWIEETKAKNAEELEKLEAELKDAKSNLGKESIRMALEDLADHYCK 48 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence 34444444454555544444443 4455778888889999998874
No 44
>PRK08126 hypothetical protein; Provisional
Probab=24.85 E-value=1.4e+02 Score=27.21 Aligned_cols=43 Identities=16% Similarity=0.264 Sum_probs=37.0
Q ss_pred HHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHH
Q 032069 68 RMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQA 110 (148)
Q Consensus 68 ~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~ 110 (148)
-||.||--||.++..|+..+-..|...+-+.+-.....|++..
T Consensus 63 pLl~aA~pLL~l~~~lr~~~~~~~~~~Lr~~l~~ei~~fe~~~ 105 (432)
T PRK08126 63 PLLEAARPLLRALADMPATLDSAAVEQLRTLLVREVRLFQKLC 105 (432)
T ss_pred HHHHHHHHHHHHHHHhhcccCcCCHHHHHHHHHHHHHHHHHHH
Confidence 3899999999999999998888888888888888888887544
No 45
>KOG2678 consensus Predicted membrane protein [Function unknown]
Probab=24.78 E-value=2.8e+02 Score=23.96 Aligned_cols=58 Identities=21% Similarity=0.250 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032069 72 AADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSS 138 (148)
Q Consensus 72 AaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS 138 (148)
-+|+|++|.+.||+..+ +-...|+.-++.+.......|.....+++.= .-+|.|=|++
T Consensus 156 Laesll~LArslKtnal-----AfqsalkeDnQvl~~~~k~~D~N~~~L~~~S----erve~y~ksk 213 (244)
T KOG2678|consen 156 LAESLLKLARSLKTNAL-----AFQSALKEDNQVLGAAEKGIDVNSQGLMDVS----ERVEKYDKSK 213 (244)
T ss_pred HHHHHHHHHHHHHHhHH-----HHHHHHHhhHHHHHHHHHHHhHHHHHHHhhh----HHHHHHHHhh
Confidence 58999999999999764 2233455555555555555555555555432 3355555554
No 46
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.15 E-value=3.3e+02 Score=20.77 Aligned_cols=48 Identities=15% Similarity=0.100 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCc-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 80 VSELKQTAIFSGF-ASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAAS 127 (148)
Q Consensus 80 vseLKq~liL~Df-~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~ 127 (148)
+.++|+++-..+. ....+.+..+...+..+..+++.++..+.+-....
T Consensus 59 L~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~i~~Le~~l~~L~~~~~~l 107 (134)
T cd04779 59 LAEIKDQLEEVQRSDKEQREVAQEVQLVCDQIDGLEHRLKQLKPIASQT 107 (134)
T ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577777655543 34445566666666666666666666554444333
No 47
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 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. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=24.10 E-value=3.7e+02 Score=21.32 Aligned_cols=67 Identities=16% Similarity=0.171 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 032069 72 AADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSSGHR 141 (148)
Q Consensus 72 AaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS~~k 141 (148)
+++.|+..=.+|+..+-.- ..-..+..++..|++.....|.++..+-..|...-.+|..--+....+
T Consensus 3 ~~~~L~~~d~~L~~~L~~l---~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~~~~~~ 69 (188)
T PF10018_consen 3 LAEDLIEADDELSSALEEL---QEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPDQADEK 69 (188)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3556666666666655432 223455677888888888888888888888888888887776544444
No 48
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=23.96 E-value=1.6e+02 Score=20.25 Aligned_cols=46 Identities=20% Similarity=0.364 Sum_probs=29.4
Q ss_pred HhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032069 87 AIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYY 136 (148)
Q Consensus 87 liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYY 136 (148)
+|..|.+.+-+.+..+...+...-+.+...+..+... +.+++..+|
T Consensus 55 fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~----l~~~~~~l~ 100 (106)
T PF01920_consen 55 FVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKK----LKELKKKLY 100 (106)
T ss_dssp EEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 5666777777777777777776666666665555544 444555554
No 49
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 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. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=23.51 E-value=3.4e+02 Score=20.72 Aligned_cols=106 Identities=16% Similarity=0.332 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHhhccCCC-------C--cc------------------chHHHH--HHHhHHHHHHHhHH
Q 032069 24 LMQRVETDIASIVDNFSQLVNVARVNDP-------P--VR------------------NSQESF--MMEMRASRMVQAAD 74 (148)
Q Consensus 24 l~~Rl~~dI~slldnF~~Iik~Akv~d~-------~--~~------------------~~~e~f--em~vrAa~mVrAaE 74 (148)
..+.|-+-|.+|.+.|.+=|..-.-..+ . +. ..-+.| ...--|..||+.+-
T Consensus 4 rlTQLQd~ldqL~~~f~~si~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~elA~dIi~kak 83 (144)
T PF11221_consen 4 RLTQLQDCLDQLAEQFCNSIGYLQRDAPPSPLSPNDPSISDPKPQAPPQQQQQAEPAPDPPEEFEENIKELATDIIRKAK 83 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTGGGG-----------------------------HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCcccccCccccchhhhhhhhcccCCChhhHHHHHHHHHHHHHHHHH
Confidence 3567889999999999998865332211 1 00 012334 45556777888888
Q ss_pred HHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 75 SLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHY 135 (148)
Q Consensus 75 sLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeY 135 (148)
.+-.||+.| =++..=.+.-..+...|..+.++..+.+....++.-..|..+++-+
T Consensus 84 qIe~LIdsL------Pg~~~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i 138 (144)
T PF11221_consen 84 QIEYLIDSL------PGIEVSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELI 138 (144)
T ss_dssp HHHHHHHHS------TTSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhC------CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 888877764 2233333344456667777777777788888888877777777643
No 50
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=23.29 E-value=1.9e+02 Score=24.14 Aligned_cols=26 Identities=15% Similarity=0.555 Sum_probs=20.3
Q ss_pred hHHHHHHHhHHHHHHHhHHHHHHHHHHHH
Q 032069 56 SQESFMMEMRASRMVQAADSLLKLVSELK 84 (148)
Q Consensus 56 ~~e~fem~vrAa~mVrAaEsLLkLvseLK 84 (148)
.+-+||+..++ ++.++.+++.+..||
T Consensus 234 ~qRaye~n~k~---i~t~d~~~~~~~~l~ 259 (260)
T PRK12817 234 TQRAFQLSSKG---IKTADEMWGIINNMR 259 (260)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHhh
Confidence 34478887665 666999999999987
No 51
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=22.96 E-value=3.6e+02 Score=21.99 Aligned_cols=50 Identities=20% Similarity=0.284 Sum_probs=41.7
Q ss_pred CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 032069 91 GFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYSSGH 140 (148)
Q Consensus 91 Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYsS~~ 140 (148)
.+..+..........+++..+++++.-..--.++...|..||..+..-..
T Consensus 140 ~Le~~~~~le~~l~~~k~~ie~vN~~RK~~Q~~~~~~L~~Le~~W~~~v~ 189 (221)
T PF05700_consen 140 QLEAMLKRLEKELAKLKKEIEEVNRERKRRQEEAGEELRYLEQRWKELVS 189 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 34677778888888888888999999999999999999999999876543
No 52
>PRK11677 hypothetical protein; Provisional
Probab=22.78 E-value=1.6e+02 Score=22.90 Aligned_cols=29 Identities=17% Similarity=0.129 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccCCCCC
Q 032069 116 MLARIGEEAAASLKELEAHYYSSGHRTTQ 144 (148)
Q Consensus 116 ~L~~l~del~~~L~eLEeeYYsS~~k~~~ 144 (148)
.-..|-+.|+.+=.+|-+|...|.-++-|
T Consensus 58 ~TA~Ll~~L~~~Y~~Ly~HlA~~s~~Llp 86 (134)
T PRK11677 58 RSAELLDTMAKDYRQLYQHMAKSSSELLP 86 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 34455555666666666666655544433
No 53
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=22.58 E-value=2.9e+02 Score=19.56 Aligned_cols=39 Identities=23% Similarity=0.410 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 97 DHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHY 135 (148)
Q Consensus 97 e~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeY 135 (148)
+-++.+...++...+++...+..+.+.+......++.-|
T Consensus 80 ~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~ 118 (120)
T PF02996_consen 80 EFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQLY 118 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445566667777777777777777777777777766543
No 54
>PF00512 HisKA: His Kinase A (phospho-acceptor) domain; InterPro: IPR003661 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the dimerisation and phosphoacceptor domain found in histidine kinases. It has been found in bacterial sensor protein/histidine kinases. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms []. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and the phosphotransfer from aspartyl phosphate back to ADP or to water []. The homodimeric domain includes the site of histidine autophosphorylation and phosphate transfer reactions. The structure of the homodimeric domain comprises a closed, four-helical bundle with a left-handed twist, formed by two identical alpha-hairpin subunits.; GO: 0000155 two-component sensor activity, 0007165 signal transduction, 0016020 membrane; PDB: 3DGE_A 2C2A_A 3A0R_A 4EW8_A 2LFS_B 2LFR_B 3JZ3_A 1JOY_B 3ZRW_C 3ZRV_A ....
Probab=21.12 E-value=2.1e+02 Score=17.86 Aligned_cols=29 Identities=10% Similarity=0.414 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhccCC
Q 032069 22 KTLMQRVETDIASIVDNFSQLVNVARVND 50 (148)
Q Consensus 22 ~sl~~Rl~~dI~slldnF~~Iik~Akv~d 50 (148)
+.+..++...+..|.+=..+|+..+|++.
T Consensus 39 ~~~l~~i~~~~~~l~~li~~ll~~sr~~~ 67 (68)
T PF00512_consen 39 REYLDRIRSAADRLNELINDLLDFSRIES 67 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 57888999999999999999999888763
No 55
>KOG1507 consensus Nucleosome assembly protein NAP-1 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=20.72 E-value=2.7e+02 Score=25.36 Aligned_cols=40 Identities=23% Similarity=0.297 Sum_probs=33.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032069 93 ASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYY 136 (148)
Q Consensus 93 ~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYY 136 (148)
..|-..|..|...|+..|.+|+. |........++||-.|+
T Consensus 69 ~~Lp~~Vk~Rv~aLk~lQ~~~~~----ie~~F~~e~~~LE~ky~ 108 (358)
T KOG1507|consen 69 ENLPPAVKNRVLALKNLQLECDE----IEAKFQEEVHELERKYA 108 (358)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence 67889999999999998888775 45666677889999886
No 56
>PF15191 Synaptonemal_3: Synaptonemal complex central element protein 3
Probab=20.36 E-value=3.7e+02 Score=20.05 Aligned_cols=61 Identities=25% Similarity=0.401 Sum_probs=36.3
Q ss_pred HHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 032069 70 VQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEAHYYS 137 (148)
Q Consensus 70 VrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEeeYYs 137 (148)
++-++..+|.+++|-+ |+..+-|.+..-+-++ .-.-+|=-.++..-+++.+.+-||+.|-.
T Consensus 8 ~~~~~n~~~m~~~ln~-----dlEkm~e~mEk~Svq~--twMayDmVvlrt~P~la~sm~~LEdaf~~ 68 (95)
T PF15191_consen 8 EQNYDNFLKMLSDLNQ-----DLEKMTEEMEKISVQL--TWMAYDMVVLRTSPDLAESMKKLEDAFLN 68 (95)
T ss_pred HHhHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH--HHHHHhhhheecCccHHHHHHHHHHHHHh
Confidence 5666777777766644 3344444443333222 22444555666667888888999998864
No 57
>PRK08609 hypothetical protein; Provisional
Probab=20.35 E-value=5.3e+02 Score=24.19 Aligned_cols=67 Identities=13% Similarity=0.307 Sum_probs=46.1
Q ss_pred HHHHHHHHHhHHHHHHhhccCCCCccchHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHH
Q 032069 29 ETDIASIVDNFSQLVNVARVNDPPVRNSQESFMMEMRASRMVQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTNEFNQ 108 (148)
Q Consensus 29 ~~dI~slldnF~~Iik~Akv~d~~~~~~~e~fem~vrAa~mVrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~~l~~ 108 (148)
+.+|..+++....++..-- ++ + -|+-..-|||.+|-++-.++...-=|..+|.++..+...+.++-+
T Consensus 3 n~~ia~~l~~~A~~le~~g-~n-~-----------fr~~aYr~Aa~~i~~l~~~i~~~~~l~~ipgIG~~ia~kI~Eil~ 69 (570)
T PRK08609 3 KKDVIKLLETIATYMELKG-EN-P-----------FKISAFRKAAQALELDERSLSEIDDFTKLKGIGKGTAEVIQEYRE 69 (570)
T ss_pred hHHHHHHHHHHHHHHHhcC-CC-c-----------HHHHHHHHHHHHHHhCchhhhhhhhhccCCCcCHHHHHHHHHHHH
Confidence 4567777777777766422 12 2 344455677777777777766554578899999999998887764
No 58
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=20.17 E-value=3.5e+02 Score=19.64 Aligned_cols=37 Identities=22% Similarity=0.424 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032069 97 DHVEQRTNEFNQQAEKTDRMLARIGEEAAASLKELEA 133 (148)
Q Consensus 97 e~i~~~~~~l~~~~e~~d~~L~~l~del~~~L~eLEe 133 (148)
+-++.+...+....+++...+..+++++......|..
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~ 126 (129)
T cd00584 90 EFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE 126 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6667777788888888888888888888877776665
No 59
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=20.17 E-value=3.5e+02 Score=23.65 Aligned_cols=44 Identities=18% Similarity=0.369 Sum_probs=19.6
Q ss_pred HHhHHHHHHHHHHHHHHHhhcCchhhhHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 032069 70 VQAADSLLKLVSELKQTAIFSGFASLNDHVEQRTN---EFNQQAEKTDRMLARIG 121 (148)
Q Consensus 70 VrAaEsLLkLvseLKq~liL~Df~slne~i~~~~~---~l~~~~e~~d~~L~~l~ 121 (148)
+.|-+-|-+++.++ |..|+.+|.+... .+.++.+.|..++..|+
T Consensus 24 ~~aL~~L~~v~~di--------F~rI~~Rv~~~~~~l~~i~~Ri~~~qaKi~~l~ 70 (297)
T PF11945_consen 24 ADALEYLDKVSNDI--------FSRISARVERNRERLQAIQQRIEVAQAKIEKLQ 70 (297)
T ss_pred HHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444445555443 3444444443333 33344444455554443
Done!