Query 027051
Match_columns 229
No_of_seqs 196 out of 614
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:16:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027051.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027051hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1507 Nucleosome assembly pr 100.0 8.7E-53 1.9E-57 378.8 11.0 164 4-168 156-346 (358)
2 PTZ00007 (NAP-L) nucleosome as 100.0 1.1E-49 2.5E-54 362.7 14.5 162 5-166 96-284 (337)
3 PF00956 NAP: Nucleosome assem 100.0 1.4E-45 3.1E-50 323.5 14.8 156 5-161 66-244 (244)
4 PTZ00008 (NAP-S) nucleosome as 100.0 9.1E-46 2E-50 313.3 10.9 145 2-165 30-184 (185)
5 KOG1508 DNA replication factor 99.9 7.4E-25 1.6E-29 194.4 2.9 144 2-163 74-225 (260)
6 KOG1507 Nucleosome assembly pr 99.6 3.5E-15 7.6E-20 135.5 5.4 57 170-226 64-120 (358)
7 PTZ00007 (NAP-L) nucleosome as 99.2 2.7E-11 5.8E-16 111.2 5.1 59 170-228 28-86 (337)
8 PF11629 Mst1_SARAH: C termina 88.9 1.1 2.4E-05 30.3 4.5 35 188-222 10-44 (49)
9 KOG1508 DNA replication factor 84.4 1.9 4.2E-05 38.6 5.1 54 173-226 22-75 (260)
10 PF12652 CotJB: CotJB protein; 75.2 3.9 8.5E-05 30.2 3.3 24 199-222 35-58 (78)
11 PF07352 Phage_Mu_Gam: Bacteri 68.6 13 0.00029 30.1 5.4 46 181-226 5-50 (149)
12 PF05835 Synaphin: Synaphin pr 63.2 16 0.00036 29.8 4.9 70 145-218 4-73 (139)
13 COG4396 Mu-like prophage host- 59.5 17 0.00038 29.9 4.4 42 180-221 19-60 (170)
14 TIGR03592 yidC_oxa1_cterm memb 49.8 34 0.00074 28.6 4.8 37 182-218 25-61 (181)
15 PF08109 Antimicrobial14: Lact 49.6 6.5 0.00014 23.4 0.3 16 1-16 2-17 (31)
16 smart00055 FCH Fes/CIP4 homolo 46.9 84 0.0018 22.3 6.0 23 200-222 29-51 (87)
17 PF12998 ING: Inhibitor of gro 46.7 42 0.00092 24.8 4.5 40 171-217 7-46 (105)
18 PF00611 FCH: Fes/CIP4, and EF 46.6 71 0.0015 22.6 5.6 18 200-217 29-46 (91)
19 PF05979 DUF896: Bacterial pro 45.6 53 0.0012 23.4 4.5 37 180-217 2-38 (65)
20 PF10454 DUF2458: Protein of u 45.0 49 0.0011 27.2 5.0 49 149-214 7-55 (150)
21 TIGR02338 gimC_beta prefoldin, 44.9 84 0.0018 24.0 6.0 43 177-219 68-110 (110)
22 PRK01546 hypothetical protein; 44.7 29 0.00063 25.7 3.2 40 177-217 2-41 (79)
23 PRK02539 hypothetical protein; 43.4 34 0.00073 25.7 3.4 39 178-217 2-40 (85)
24 PRK01631 hypothetical protein; 42.8 32 0.0007 25.3 3.1 37 180-217 3-39 (76)
25 PF06936 Selenoprotein_S: Sele 40.9 71 0.0015 27.4 5.5 36 176-211 73-112 (190)
26 PF06322 Phage_NinH: Phage Nin 38.6 23 0.0005 25.1 1.8 45 1-45 1-45 (64)
27 PF06464 DMAP_binding: DMAP1-b 37.5 55 0.0012 25.4 3.9 38 175-215 3-43 (111)
28 PF14942 Muted: Organelle biog 37.1 78 0.0017 25.9 4.9 32 185-216 110-141 (145)
29 PF08581 Tup_N: Tup N-terminal 36.7 80 0.0017 23.3 4.5 27 186-212 46-72 (79)
30 PF02096 60KD_IMP: 60Kd inner 35.4 90 0.0019 26.0 5.3 37 182-218 26-62 (198)
31 PF11221 Med21: Subunit 21 of 35.3 75 0.0016 25.6 4.6 33 184-216 102-134 (144)
32 PF10417 1-cysPrx_C: C-termina 34.8 9.8 0.00021 24.3 -0.6 15 85-99 9-23 (40)
33 PF08946 Osmo_CC: Osmosensory 34.3 61 0.0013 21.6 3.1 31 187-217 6-39 (46)
34 KOG4196 bZIP transcription fac 32.1 1.4E+02 0.003 24.3 5.5 38 183-220 71-118 (135)
35 PF03245 Phage_lysis: Bacterio 31.4 1.3E+02 0.0029 23.7 5.4 37 182-218 20-56 (125)
36 PF09236 AHSP: Alpha-haemoglob 29.9 1.3E+02 0.0028 22.7 4.6 49 144-208 35-83 (89)
37 PF04546 Sigma70_ner: Sigma-70 29.7 17 0.00036 31.1 -0.1 26 171-196 70-95 (211)
38 PF13864 Enkurin: Calmodulin-b 29.4 72 0.0016 24.0 3.3 22 183-204 41-62 (98)
39 PHA00276 phage lambda Rz-like 28.7 1E+02 0.0022 25.4 4.3 48 171-218 30-77 (144)
40 PRK13611 photosystem II reacti 28.2 2.8E+02 0.0061 21.6 6.4 58 37-99 14-72 (104)
41 PRK10780 periplasmic chaperone 28.2 1.2E+02 0.0026 24.8 4.7 49 170-220 25-73 (165)
42 PF11942 Spt5_N: Spt5 transcri 24.8 1.1E+02 0.0023 23.1 3.6 16 200-215 59-74 (97)
43 PF03938 OmpH: Outer membrane 24.4 1.9E+02 0.0042 22.9 5.3 45 180-224 26-70 (158)
44 PF10153 DUF2361: Uncharacteri 23.8 2.8E+02 0.006 21.9 5.8 38 176-215 17-55 (114)
45 PF06784 UPF0240: Uncharacteri 23.5 57 0.0012 27.6 2.0 32 14-45 42-73 (179)
46 PRK09343 prefoldin subunit bet 22.4 3.1E+02 0.0068 21.4 5.9 46 178-223 73-118 (121)
47 PRK00145 putative inner membra 22.3 1.5E+02 0.0031 25.8 4.4 36 182-217 54-89 (223)
48 KOG3478 Prefoldin subunit 6, K 22.2 3.2E+02 0.0069 21.7 5.7 43 177-220 70-116 (120)
49 KOG0574 STE20-like serine/thre 21.2 1.1E+02 0.0024 28.9 3.5 36 187-222 455-490 (502)
50 cd07673 F-BAR_FCHO2 The F-BAR 21.0 83 0.0018 28.1 2.6 34 180-217 16-49 (269)
51 COG3105 Uncharacterized protei 20.3 2E+02 0.0044 23.4 4.4 13 209-221 71-83 (138)
52 PHA03161 hypothetical protein; 20.3 2.1E+02 0.0046 23.7 4.6 40 171-210 74-113 (150)
No 1
>KOG1507 consensus Nucleosome assembly protein NAP-1 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=8.7e-53 Score=378.85 Aligned_cols=164 Identities=42% Similarity=0.703 Sum_probs=146.4
Q ss_pred ccCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEccCC-CceEEEEEeCCCCcccCceEEEEEEEe---cCCc
Q 027051 4 EEKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRLVCC-PEFKLEFFFGPNPYFKNYVLAKKFIMI---DEVK 79 (229)
Q Consensus 4 ~i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~~d~-~~f~l~F~F~~NpYF~N~vLtK~y~~~---~~~~ 79 (229)
..+|||+||+|||+|+++++.||+++|++||+||+||++.+..++ +||+|+|||.+||||+|++|||+|+|+ +..+
T Consensus 156 d~KGIP~FWLtvlkNvd~lse~I~~~DEpiLk~L~DI~~~~~~~~~~~fklEFhFd~N~YFtN~vLTKTY~l~~~~D~~~ 235 (358)
T KOG1507|consen 156 DPKGIPDFWLTVLKNVDLLSEMITERDEPILKYLKDIRLKYSEDGQVGFKLEFHFDPNPYFTNEVLTKTYFLKSEPDEDD 235 (358)
T ss_pred cccCCchHHHHHHhhhhhhhhhcccccHHHHHHHhhhheeeccCCccceEEEEEcCCCccccccceeeeeeeeccCCCcC
Confidence 569999999999999999999999999999999999999999887 599999999999999999999999998 4444
Q ss_pred e------eeeceeeceeeeecCCCcccccccCCCCc----------------ccccccccCCCCCCCccccHHH-HHhhh
Q 027051 80 L------IFDEAIGSKIKWYPEKCLTRECSTRKPKK----------------SFFNFFKSLEFPFYDESIDVKL-LHQLE 136 (229)
Q Consensus 80 ~------~~~~~~~t~I~Wk~gkdlt~~~~~kk~~~----------------SFF~fF~~~~~p~~~~~~dee~-~~~l~ 136 (229)
| .+..|+||.|+|++|||||+++++|||++ ||||||+|+..|+ +++.|++. +.+|+
T Consensus 236 P~~~~G~~i~~~~Gc~IdW~~gknlT~kti~kKq~~k~~~~~r~vtk~vp~eSFFNFFsPP~ipd-~~d~Ded~~~~~L~ 314 (358)
T KOG1507|consen 236 PFAFDGPEIEKCEGCEIDWKPGKNLTVKTIKKKQRNKGTGQVRTVTKTVPNESFFNFFSPPEIPD-EEDLDEDDLEELLE 314 (358)
T ss_pred CcccCCceEEeeecCeeeccCCCccchhhhhhhccccCCCceeeeeecccchhhhhccCCCCCCc-ccccCchHHHHHHH
Confidence 5 68899999999999999999998887642 9999999999993 33344444 89999
Q ss_pred hhhHHHHHhhhccccchhhhhccccCCccccc
Q 027051 137 HDYKIGVTIKKEIVCHAISWFCGDATCGRRTK 168 (229)
Q Consensus 137 ~D~eig~~i~d~IiP~al~yy~g~~~~~~d~~ 168 (229)
.||+||+.||+.|||+||.||||++.+++++.
T Consensus 315 ~DyeIG~~lr~~IIPrAV~~fTGea~e~~~~~ 346 (358)
T KOG1507|consen 315 LDYEIGETLRDKIIPRAVLWFTGEALEDEDDF 346 (358)
T ss_pred hhHHHHHHHHhhhhhheeeeeccccccccccc
Confidence 99999999999999999999999997655433
No 2
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=100.00 E-value=1.1e-49 Score=362.68 Aligned_cols=162 Identities=38% Similarity=0.647 Sum_probs=141.9
Q ss_pred cCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEccCC--CceEEEEEeCCCCcccCceEEEEEEEec---CCc
Q 027051 5 EKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRLVCC--PEFKLEFFFGPNPYFKNYVLAKKFIMID---EVK 79 (229)
Q Consensus 5 i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~~d~--~~f~l~F~F~~NpYF~N~vLtK~y~~~~---~~~ 79 (229)
.+|||+||++||+||+.++.+|+++|++||+||+||+|++..+. +||+|+|+|++||||+|++|||+|++.. .+.
T Consensus 96 ~~gIP~FWl~vL~Nh~~ls~~I~e~De~iL~~L~dI~ve~~~~~~~~gf~I~F~F~~NpyF~N~vLtK~y~~~~~d~~~~ 175 (337)
T PTZ00007 96 TPGLPQFWLTAMKNNNTLGSAIEEHDEPILSYLSDISCEYTEPNKQEGFILVFTFAPNPFFSNTVLTKTYHMKVLDGDDE 175 (337)
T ss_pred cCCcccHHHHHHHcCccHhhhCCHHHHHHHHhhCceEEEEccCCCCCceEEEEEeCCCCCCCCCeEEEEEEeecCCCCCC
Confidence 34899999999999999999999999999999999999988653 6999999999999999999999999964 235
Q ss_pred eeeeceeeceeeeecCCCcccccccCCCC----------------cccccccccCCCCCCCc------cccHHHHHhhhh
Q 027051 80 LIFDEAIGSKIKWYPEKCLTRECSTRKPK----------------KSFFNFFKSLEFPFYDE------SIDVKLLHQLEH 137 (229)
Q Consensus 80 ~~~~~~~~t~I~Wk~gkdlt~~~~~kk~~----------------~SFF~fF~~~~~p~~~~------~~dee~~~~l~~ 137 (229)
|++.+++||+|+||+|||||+++++||++ .||||||+++..|+.++ +..++++++|+.
T Consensus 176 p~~~~~~~t~I~WK~GkdlT~k~v~kKqr~K~~~~~r~v~~~~~~~SFFnfF~p~~~p~~~~~e~~~e~~~ee~~~~l~~ 255 (337)
T PTZ00007 176 PLLSNTVATEIDWKQGKDVTKKVVTKKQRHKKTKETRTVTETVDRESFFNFFTSHEVPSDEELEKMSKHEIAELEMIVET 255 (337)
T ss_pred ceeecceeeeceeeCCCCchhhhcccccccccCCCceeeccCCCCCChHHhcCCCCCCcccccccccchhHHHHHHHHHH
Confidence 66678999999999999999988766543 39999999998886542 122358899999
Q ss_pred hhHHHHHhhhccccchhhhhccccCCccc
Q 027051 138 DYKIGVTIKKEIVCHAISWFCGDATCGRR 166 (229)
Q Consensus 138 D~eig~~i~d~IiP~al~yy~g~~~~~~d 166 (229)
||+||++|+++|||+||.||||++.++++
T Consensus 256 DyeiG~~ikd~IIP~AV~yftGea~d~~~ 284 (337)
T PTZ00007 256 DYEIGITIRDKLIPYAVYWFLGEAIDEDS 284 (337)
T ss_pred hHHHHHHHHHhcccccHHhhCCCcccccc
Confidence 99999999999999999999999988554
No 3
>PF00956 NAP: Nucleosome assembly protein (NAP); InterPro: IPR002164 It is thought that NAPs act as histone chaperones, shuttling both core and linker histones from their site of synthesis in the cytoplasm to the nucleus. The proteins may be involved in regulating gene expression and therefore cellular differentiation [, ]. The centrosomal protein c-Nap1, also known as Cep250, has been implicated in the cell-cycle-regulated cohesion of microtubule-organizing centres. This 281 kDa protein consists mainly of domains predicted to form coiled coil structures. The C-terminal region defines a novel histone-binding domain that is responsible for targeting CNAP1, and possibly condensin, to mitotic chromosomes []. During interphase, C-Nap1 localizes to the proximal ends of both parental centrioles, but it dissociates from these structures at the onset of mitosis. Re-association with centrioles then occurs in late telophase or at the very beginning of G1 phase, when daughter cells are still connected by post-mitotic bridges. Electron microscopic studies performed on isolated centrosomes suggest that a proteinaceous linker connects parental centrioles and C-Nap1 may be part of a linker structure that assures the cohesion of duplicated centrosomes during interphase, but that is dismantled upon centrosome separation at the onset of mitosis []. ; GO: 0006334 nucleosome assembly, 0005634 nucleus; PDB: 2E50_Q 2Z2R_A 2AYU_A 3Q66_A 3C9B_A 3Q68_B 3Q33_B 2ZD7_B 3DM7_A 3C9D_A ....
Probab=100.00 E-value=1.4e-45 Score=323.47 Aligned_cols=156 Identities=40% Similarity=0.689 Sum_probs=131.0
Q ss_pred cCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEccC-CCceEEEEEeCCCCcccCceEEEEEEEecCCc---e
Q 027051 5 EKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRLVC-CPEFKLEFFFGPNPYFKNYVLAKKFIMIDEVK---L 80 (229)
Q Consensus 5 i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~~d-~~~f~l~F~F~~NpYF~N~vLtK~y~~~~~~~---~ 80 (229)
.+|||+||++||+||++++.+|++.|.++|+||+||+|+...+ +++|+|+|+|++||||+|++|+|+|++..+++ |
T Consensus 66 ~~gIP~FW~~vl~n~~~~~~~i~~~D~~iL~~L~dI~v~~~~~~~~~f~l~F~F~~NpyF~n~~L~K~~~~~~~~~~~~~ 145 (244)
T PF00956_consen 66 PKGIPGFWLTVLKNHPLLAELISEEDEEILSYLTDIRVEYFEDNPRGFKLTFHFKPNPYFSNTVLTKEYYLKKEGDEEDP 145 (244)
T ss_dssp STTSTTHHHHHHHTSHHHHTTSSHHHHHHHTTEEEEEEEECCSSTTEEEEEEEECSTSSBSESEEEEEEEEESSSSTTTT
T ss_pred ccCCCCccccccccCchhhcccccccHHHHHhhhheEEEecccCCcceEEEEEECCCCcccCCEEEEEEEEeccCCCCCC
Confidence 5679999999999999999999999999999999999999977 56999999999999999999999999987654 1
Q ss_pred -eeeceeeceeeeecCCCcccccccCCCC----------------cccccccccCCCCCCCc--cccHHHHHhhhhhhHH
Q 027051 81 -IFDEAIGSKIKWYPEKCLTRECSTRKPK----------------KSFFNFFKSLEFPFYDE--SIDVKLLHQLEHDYKI 141 (229)
Q Consensus 81 -~~~~~~~t~I~Wk~gkdlt~~~~~kk~~----------------~SFF~fF~~~~~p~~~~--~~dee~~~~l~~D~ei 141 (229)
. .++++|+|+||+|+|+|++.++++++ .|||+||+++..|++++ +.+++.++.+..|++|
T Consensus 146 ~~-~~~~~t~I~Wk~gkd~t~~~~~~k~~~k~~~~~~~~~~~~~~~SFF~~F~~~~~~~~~~~e~~~~~~~~~~~~d~ei 224 (244)
T PF00956_consen 146 DE-LKSESTPIDWKPGKDLTKKEVKKKQKNKGTKQVRTITKEVPTESFFNFFSPPKLPDEEDDEEEDEDEEEEIEDDFEI 224 (244)
T ss_dssp -E-EEEEE---EBSTTTCTTCCCCECECCSCCCH-ECCCCCCCC--SGGGGSS-B-S--TTTSSSTCHHHHHHHHHHHHH
T ss_pred Cc-ceeeeecccccCCCCccchhhhhcccccccccccceeecccCcchhhhcccCCCCcccccccchhhHHHHhhccHHH
Confidence 2 48999999999999999987765432 39999999987775433 2445567889999999
Q ss_pred HHHhhhccccchhhhhcccc
Q 027051 142 GVTIKKEIVCHAISWFCGDA 161 (229)
Q Consensus 142 g~~i~d~IiP~al~yy~g~~ 161 (229)
|.+|+++|||+||.||||+|
T Consensus 225 ~~~i~d~i~P~av~yy~gea 244 (244)
T PF00956_consen 225 GEIIKDDIIPNAVKYYTGEA 244 (244)
T ss_dssp HHHHHHTCCCHHHHHHHTCT
T ss_pred HHHHHhheechHHHHhCCCC
Confidence 99999999999999999986
No 4
>PTZ00008 (NAP-S) nucleosome assembly protein-S; Provisional
Probab=100.00 E-value=9.1e-46 Score=313.31 Aligned_cols=145 Identities=19% Similarity=0.346 Sum_probs=126.3
Q ss_pred ccccCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEc-cCCCceEEEEEeCC--CCcccCceEEEEEEEecCC
Q 027051 2 QNEEKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRL-VCCPEFKLEFFFGP--NPYFKNYVLAKKFIMIDEV 78 (229)
Q Consensus 2 ~e~i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~-~d~~~f~l~F~F~~--NpYF~N~vLtK~y~~~~~~ 78 (229)
.++|+|||+||++||+||+.++ +|+++|+++|+||+||+|+.. .+++||+|+|+|.+ ||||+|++|||+|++.+++
T Consensus 30 ~~II~gIP~FW~~vl~n~~~~~-~I~~~D~~~L~~L~dI~ve~~~~~~~~f~i~F~F~~~~N~yF~n~~LtK~y~~~~~~ 108 (185)
T PTZ00008 30 QEIIEKIPGFWADTLRRHPALS-YLVPEDIDILEHLKKIDLEDNLDNNGSYKITLIFDEKAKEFMEPLVLVKHVIFKNNQ 108 (185)
T ss_pred HHHHhcCccHHHHHHHcCcccc-ccCHHHHHHHHHhCceEEEEeecCCCCEEEEEEECCCCCCCcCCCEEEEEEEEecCC
Confidence 3678999999999999999999 999999999999999999974 45569999999965 8999999999999998765
Q ss_pred ceeeeceeeceeeeecCCCcccccccCCC-------CcccccccccCCCCCCCccccHHHHHhhhhhhHHHHHhhhcccc
Q 027051 79 KLIFDEAIGSKIKWYPEKCLTRECSTRKP-------KKSFFNFFKSLEFPFYDESIDVKLLHQLEHDYKIGVTIKKEIVC 151 (229)
Q Consensus 79 ~~~~~~~~~t~I~Wk~gkdlt~~~~~kk~-------~~SFF~fF~~~~~p~~~~~~dee~~~~l~~D~eig~~i~d~IiP 151 (229)
+. .+++|+|+||+|+|+|+++.+++. ..||||||+++..+ .|++||++|+++|||
T Consensus 109 ~~---~~~~t~I~Wk~gkn~t~~~~kk~~~~~~~~~~~SFF~fF~~~~~~---------------~~~eIg~~i~e~i~P 170 (185)
T PTZ00008 109 EK---VVEVTKIKWKEGKSPIAAAEKARSDLDDECIVWSIFEWFTEEEWQ---------------DRPDVGEIIRREIWH 170 (185)
T ss_pred Cc---eeeeeecccCCCCCcceeeeeccCccccCCCCCChhhcCCCCccc---------------CcHHHHHHHHHhhcc
Confidence 43 578999999999999998766432 24999999986433 356999999999999
Q ss_pred chhhhhccccCCcc
Q 027051 152 HAISWFCGDATCGR 165 (229)
Q Consensus 152 ~al~yy~g~~~~~~ 165 (229)
+||.||+|++.+++
T Consensus 171 ~av~yy~ge~~~~~ 184 (185)
T PTZ00008 171 APLLYYLDTVSIDD 184 (185)
T ss_pred chHHhhCCcccccc
Confidence 99999999988765
No 5
>KOG1508 consensus DNA replication factor/protein phosphatase inhibitor SET/SPR-2 [Replication, recombination and repair]
Probab=99.90 E-value=7.4e-25 Score=194.45 Aligned_cols=144 Identities=30% Similarity=0.479 Sum_probs=125.8
Q ss_pred ccccCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEccCCC-ceEEEEEeCCCCcccCceEEEEEEEecCCce
Q 027051 2 QNEEKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRLVCCP-EFKLEFFFGPNPYFKNYVLAKKFIMIDEVKL 80 (229)
Q Consensus 2 ~e~i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~~d~~-~f~l~F~F~~NpYF~N~vLtK~y~~~~~~~~ 80 (229)
..+++.||+||.+++.|||.++.+|.+.|.+++.||..+.|+.+.+.. ||++.|+|.+|+||+|.+++|+|++...+++
T Consensus 74 ~~ii~~i~~fw~~~~~~hp~~~~~i~~~~~e~~~~l~~~~v~e~~~~~sg~~~~~~f~~ney~~~~~~~ke~~~~~~~~~ 153 (260)
T KOG1508|consen 74 RELIKEIPNFWVTAFLNHPTLSEWIPEEDEEALHYLHNLEVEELGDIKSGYRIKFSFEINEYFTNDLLVKEFQYKESGKP 153 (260)
T ss_pred hHHHhhcccceeEEEecCCcHhhhhhhhhhhhhccchHHHHHHhccccccCeeeeeeccchhcccchhceeeeeecccCc
Confidence 457899999999999999999999999999999999999999998765 9999999999999999999999999988876
Q ss_pred eeeceeeceeeeecCCCcccccc----cCCC---CcccccccccCCCCCCCccccHHHHHhhhhhhHHHHHhhhccccch
Q 027051 81 IFDEAIGSKIKWYPEKCLTRECS----TRKP---KKSFFNFFKSLEFPFYDESIDVKLLHQLEHDYKIGVTIKKEIVCHA 153 (229)
Q Consensus 81 ~~~~~~~t~I~Wk~gkdlt~~~~----~kk~---~~SFF~fF~~~~~p~~~~~~dee~~~~l~~D~eig~~i~d~IiP~a 153 (229)
++.+|+|.|+.|+++..... +++. ..|||.||+.+..++.+ +|+++|++.+||++
T Consensus 154 ---~s~~t~i~w~~~~~~~~~~~~~~~~~k~~~~~~s~f~wf~~~~~~~~d---------------~i~ei~~~~~~~~~ 215 (260)
T KOG1508|consen 154 ---SSESTPISWKEGKPLPNPVKRGELKNKNGDGPKSFFEWFSDTSLKEFD---------------EILEIIKDELWPNP 215 (260)
T ss_pred ---ccccccccccCCCCCcccccccccccccCcccccHHHHHHhccCCCcc---------------chhhhhhcccccch
Confidence 58999999999998765433 2221 24999999999877632 69999999999999
Q ss_pred hhhhccccCC
Q 027051 154 ISWFCGDATC 163 (229)
Q Consensus 154 l~yy~g~~~~ 163 (229)
++||+-...+
T Consensus 216 ~~~~~~~~~~ 225 (260)
T KOG1508|consen 216 LQYYLEPDGE 225 (260)
T ss_pred hhhhcccccc
Confidence 9999865544
No 6
>KOG1507 consensus Nucleosome assembly protein NAP-1 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=99.55 E-value=3.5e-15 Score=135.54 Aligned_cols=57 Identities=25% Similarity=0.363 Sum_probs=55.0
Q ss_pred ccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhcccc
Q 027051 170 KIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTKVSY 226 (229)
Q Consensus 170 ~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~r~~ 226 (229)
.++++.+||+.|++||.|||+||.+|++||++|++|+.+||+||++||||||.||..
T Consensus 64 ~s~~v~~Lp~~Vk~Rv~aLk~lQ~~~~~ie~~F~~e~~~LE~ky~~~yqplfdkR~e 120 (358)
T KOG1507|consen 64 LSDMVENLPPAVKNRVLALKNLQLECDEIEAKFQEEVHELERKYAKLYQPLFDKRRE 120 (358)
T ss_pred CchhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHH
Confidence 378999999999999999999999999999999999999999999999999999974
No 7
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=99.16 E-value=2.7e-11 Score=111.24 Aligned_cols=59 Identities=22% Similarity=0.287 Sum_probs=56.0
Q ss_pred ccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhcccccC
Q 027051 170 KIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTKVSYHL 228 (229)
Q Consensus 170 ~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~r~~~~ 228 (229)
++++..+||+.|++||.+|+.||.++++|+++|.+|+.+||+||+++|+|||.||.-.+
T Consensus 28 ~~~~i~~Lp~~~~~rv~aL~~lQ~e~~~le~ef~~ev~~LE~kY~~~~~Ply~kR~eII 86 (337)
T PTZ00007 28 DDEKLSHLTDEQRETLKKLQLLQKEFDDLEVEYNAELRKLRSKYEDLYNPIYDKRKEAL 86 (337)
T ss_pred ccchhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 57889999999999999999999999999999999999999999999999999998643
No 8
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=88.88 E-value=1.1 Score=30.28 Aligned_cols=35 Identities=17% Similarity=0.271 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchh
Q 027051 188 LRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDT 222 (229)
Q Consensus 188 l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~ 222 (229)
+.+||....-|...+..|+.+|.+.|+.+=||+..
T Consensus 10 ~~eL~~rl~~LD~~ME~Eieelr~RY~~KRqPIld 44 (49)
T PF11629_consen 10 YEELQQRLASLDPEMEQEIEELRQRYQAKRQPILD 44 (49)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHhhccHHH
Confidence 46788888899999999999999999999999864
No 9
>KOG1508 consensus DNA replication factor/protein phosphatase inhibitor SET/SPR-2 [Replication, recombination and repair]
Probab=84.44 E-value=1.9 Score=38.63 Aligned_cols=54 Identities=19% Similarity=0.239 Sum_probs=48.6
Q ss_pred cCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhcccc
Q 027051 173 YDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTKVSY 226 (229)
Q Consensus 173 ~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~r~~ 226 (229)
-...-++.+....+.|..+|.+++-+.++.-++...|+.||..+-.|.|.+|..
T Consensus 22 ~l~~~~~~~~~~~~~l~~i~~e~~~~~~~a~~~~l~l~~~~~~~r~p~~~~r~~ 75 (260)
T KOG1508|consen 22 HLSRRGREIEEALETLENIQHELDRMNAKAEVEVLKLEQKFNRFRRPVYEKRRE 75 (260)
T ss_pred ccccchhHHHhhhHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhCchhhhhhH
Confidence 344566788889999999999999999999999999999999999999999864
No 10
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=75.15 E-value=3.9 Score=30.16 Aligned_cols=24 Identities=25% Similarity=0.440 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHhhccchh
Q 027051 199 EAEFLEKRRKEEANYVKLCQPLDT 222 (229)
Q Consensus 199 ~~~~~~e~~~le~~y~~~~~pl~~ 222 (229)
-.++...+.+|.+.|++.|.||..
T Consensus 35 y~~~~~~~~~l~~~Ye~~yGPLt~ 58 (78)
T PF12652_consen 35 YNEYSKQRKQLKKEYEKRYGPLTN 58 (78)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcC
Confidence 457889999999999999999963
No 11
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=68.63 E-value=13 Score=30.12 Aligned_cols=46 Identities=17% Similarity=0.322 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhcccc
Q 027051 181 LVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTKVSY 226 (229)
Q Consensus 181 v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~r~~ 226 (229)
+..=+.-+..+|.+.+++++.+..++.++.+.|++--.||-.+..+
T Consensus 5 a~~al~ki~~l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~ 50 (149)
T PF07352_consen 5 ADWALRKIAELQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEY 50 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566788999999999999999999999999999998776543
No 12
>PF05835 Synaphin: Synaphin protein; InterPro: IPR008849 This family consists of several eukaryotic synaphin 1 and 2 proteins. Synaphin/complexin is a cytosolic protein that preferentially binds to syntaxin within the SNARE complex. Synaphin promotes SNAREs to form precomplexes that oligomerise into higher order structures. A peptide from the central, syntaxin binding domain of synaphin competitively inhibits these two proteins from interacting and prevents SNARE complexes from oligomerising. It is thought that oligomerisation of SNARE complexes into a higher order structure creates a SNARE scaffold for efficient, regulated fusion of synaptic vesicles []. Synaphin promotes neuronal exocytosis by promoting interaction between the complementary syntaxin and synaptobrevin transmembrane regions that reside in opposing membranes prior to fusion [].; GO: 0019905 syntaxin binding, 0006836 neurotransmitter transport; PDB: 3RL0_m 3RK3_E 1L4A_E 1KIL_E.
Probab=63.20 E-value=16 Score=29.81 Aligned_cols=70 Identities=16% Similarity=0.062 Sum_probs=35.1
Q ss_pred hhhccccchhhhhccccCCccccccccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027051 145 IKKEIVCHAISWFCGDATCGRRTKRKIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQ 218 (229)
Q Consensus 145 i~d~IiP~al~yy~g~~~~~~d~~~~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~ 218 (229)
|.-.++.+++.=+.+...+++++.+. +..+..-..+.++|++-..++++-.++...||+.+.......|.
T Consensus 4 v~Kqmvg~~lk~l~~~~g~~~~e~~~----~~a~ee~~E~qeal~eeee~Rk~k~~k~eaERe~mRq~IRdKY~ 73 (139)
T PF05835_consen 4 VMKQMVGGQLKDLGKGLGGEEDEGDP----SDAEEEEEEYQEALREEEEERKAKHAKMEAEREKMRQHIRDKYG 73 (139)
T ss_dssp -------------------------S-----HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhcchhhhhcccCCCCcccCCc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34456677777777755444333322 22336667788888888899999999999999998888877774
No 13
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=59.45 E-value=17 Score=29.90 Aligned_cols=42 Identities=24% Similarity=0.438 Sum_probs=38.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccch
Q 027051 180 NLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLD 221 (229)
Q Consensus 180 ~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~ 221 (229)
+|.+-+.-|-.||.+|-.|+.++-.+++++++.|...-+||-
T Consensus 19 eV~~~Ir~iGDlqRE~~RLeTemnDk~aai~e~Yapq~~~lk 60 (170)
T COG4396 19 EVTAFIRQIGDLQREVKRLETEMNDKKAAIEEEYAPQAAPLK 60 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcchHhHHHHHhhhhhHHHH
Confidence 677778889999999999999999999999999998888874
No 14
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=49.83 E-value=34 Score=28.56 Aligned_cols=37 Identities=11% Similarity=0.389 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027051 182 VQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQ 218 (229)
Q Consensus 182 ~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~ 218 (229)
.+.-..++.+|-+.+++.++|.+++.++.++..+||+
T Consensus 25 ~~~~~km~~i~P~~~~i~~k~k~~~~~~~~e~~~l~k 61 (181)
T TIGR03592 25 YKSMRKMQELQPKLKEIQEKYKDDPQKLQQEMMKLYK 61 (181)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3444567889999999999999888888888888774
No 15
>PF08109 Antimicrobial14: Lactocin 705 family; InterPro: IPR012517 This family consists of lactocin 705 which is a bacteriocin produced by Lactobacillus casei CRL 705. Lactocin 705 is a class IIb bacteriocin, whose activity depends upon the complementation of two peptides (705-alpha and 705-beta) of 33 amino acid residues each. Lactocin 705 is active against several Gram-positive bacteria, including food-borne pathogens and is a good candidate to be used for biopreservation of fermented meats [].
Probab=49.65 E-value=6.5 Score=23.38 Aligned_cols=16 Identities=25% Similarity=0.505 Sum_probs=12.7
Q ss_pred CccccCCCCchHHHHH
Q 027051 1 MQNEEKGVPNFWLTAM 16 (229)
Q Consensus 1 ~~e~i~~IP~FW~~vl 16 (229)
|...|+|||+|-.--|
T Consensus 2 msgyiqgipdflkgyl 17 (31)
T PF08109_consen 2 MSGYIQGIPDFLKGYL 17 (31)
T ss_pred CcccccccHHHHHHHH
Confidence 6788999999965544
No 16
>smart00055 FCH Fes/CIP4 homology domain. Alignment extended from original report. Highly alpha-helical. Also known as the RAEYL motif or the S. pombe Cdc15 N-terminal domain.
Probab=46.90 E-value=84 Score=22.33 Aligned_cols=23 Identities=35% Similarity=0.515 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHhhccchh
Q 027051 200 AEFLEKRRKEEANYVKLCQPLDT 222 (229)
Q Consensus 200 ~~~~~e~~~le~~y~~~~~pl~~ 222 (229)
.+|.++|+++|..|.+--+=|..
T Consensus 29 ~~f~~~Ra~iE~eYak~L~kL~~ 51 (87)
T smart00055 29 KKFIRERAKIEEEYAKKLQKLSK 51 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999876665554
No 17
>PF12998 ING: Inhibitor of growth proteins N-terminal histone-binding; InterPro: IPR024610 Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail. This entry represents the N-terminal histone binding domain found in inhibitor proteins.; PDB: 4AFL_A.
Probab=46.73 E-value=42 Score=24.82 Aligned_cols=40 Identities=8% Similarity=0.152 Sum_probs=27.5
Q ss_pred cccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 171 IEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 171 ~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
.+..+.||+++++++.-+++|-.+ ...-..++++.+.+..
T Consensus 7 ~d~~~~LP~el~r~l~~irelD~~-------~~~~~~~~~~~~~~~~ 46 (105)
T PF12998_consen 7 LDSLENLPAELQRNLTLIRELDAK-------SQDLLEELDQQIQKFI 46 (105)
T ss_dssp HTSGGGHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHChHHHHHHHHHHHHhhhh-------HHHHHHHHHHHHHHHH
Confidence 466789999999999999887665 3344444455544444
No 18
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=46.59 E-value=71 Score=22.64 Aligned_cols=18 Identities=33% Similarity=0.508 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 027051 200 AEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 200 ~~~~~e~~~le~~y~~~~ 217 (229)
..|.+||++||..|.+--
T Consensus 29 ~~~~keRa~lE~~Yak~L 46 (91)
T PF00611_consen 29 ASFFKERASLEEEYAKSL 46 (91)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467777777777776643
No 19
>PF05979 DUF896: Bacterial protein of unknown function (DUF896); InterPro: IPR009242 This family consists of several short, hypothetical bacterial proteins of unknown function. They may be involved in the bacterial SOS response [].; PDB: 2HEP_A 3BHP_C 2JVD_A.
Probab=45.57 E-value=53 Score=23.42 Aligned_cols=37 Identities=16% Similarity=0.188 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 180 NLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 180 ~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
++..||+.|-..++ -..|..+=..|+++|...|.+-+
T Consensus 2 e~i~RINeLa~K~K-~~gLT~eE~~Eq~~LR~eYl~~f 38 (65)
T PF05979_consen 2 EKIDRINELAKKSK-EEGLTEEEKAEQAELRQEYLQNF 38 (65)
T ss_dssp HHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHHTT
T ss_pred cHHHHHHHHHHHhc-cCCCCHHHHHHHHHHHHHHHHHH
Confidence 56789999999888 56788888899999999998765
No 20
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=45.03 E-value=49 Score=27.24 Aligned_cols=49 Identities=18% Similarity=0.190 Sum_probs=36.6
Q ss_pred cccchhhhhccccCCccccccccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027051 149 IVCHAISWFCGDATCGRRTKRKIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYV 214 (229)
Q Consensus 149 IiP~al~yy~g~~~~~~d~~~~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~ 214 (229)
-||.|+.|-.-..... +++..|| |.|-..|+++|.++.++|.+|-+||.
T Consensus 7 ~w~~ALryv~~~v~~n--------------~~~~~~I---r~Li~~Q~~~Er~w~~~Re~l~~k~~ 55 (150)
T PF10454_consen 7 TWPAALRYVMKTVAQN--------------PEFLQRI---RRLIKEQHDHERQWWEGREALIAKQK 55 (150)
T ss_pred cHHHHHHHHHHHHhcC--------------HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3888888876655544 2455555 45556777889999999999999998
No 21
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=44.88 E-value=84 Score=24.04 Aligned_cols=43 Identities=21% Similarity=0.213 Sum_probs=29.9
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 027051 177 AAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQP 219 (229)
Q Consensus 177 l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~p 219 (229)
+-+.+..|++.|..--+..++-...-.+...+++++.+.+++|
T Consensus 68 ~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~~~ 110 (110)
T TIGR02338 68 AIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEALAP 110 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4457778887776655555555556666777788888888776
No 22
>PRK01546 hypothetical protein; Provisional
Probab=44.66 E-value=29 Score=25.72 Aligned_cols=40 Identities=25% Similarity=0.262 Sum_probs=33.2
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 177 AAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 177 l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
+...+..||+.|-..+++ ..|..+=.+|+.+|...|.+-+
T Consensus 2 ~~~~~i~RINeLakK~K~-~gLT~eEk~Eq~~LR~eYl~~f 41 (79)
T PRK01546 2 LSHELVERINFLAKKAKA-EGLTEEEQRERQSLREQYLKGF 41 (79)
T ss_pred CcHHHHHHHHHHHHhhcc-cCCCHHHHHHHHHHHHHHHHHH
Confidence 345789999999999886 7788888899999999998754
No 23
>PRK02539 hypothetical protein; Provisional
Probab=43.42 E-value=34 Score=25.74 Aligned_cols=39 Identities=18% Similarity=0.189 Sum_probs=32.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 178 AGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 178 ~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
...+..||+.|-..++. ..|..+=.+|+.+|...|.+-+
T Consensus 2 ~~~~I~RINeLakK~K~-~gLT~eEk~Eq~~LR~eYl~~f 40 (85)
T PRK02539 2 DPKKIARINELAKKKKT-EGLTGEEKVEQAKLREEYIEGY 40 (85)
T ss_pred CHHHHHHHHHHHHHhcc-cCCCHHHHHHHHHHHHHHHHHH
Confidence 34678999999999887 7788888899999999998754
No 24
>PRK01631 hypothetical protein; Provisional
Probab=42.76 E-value=32 Score=25.33 Aligned_cols=37 Identities=22% Similarity=0.299 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 180 NLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 180 ~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
++..||+.|-..+++ ..|..+=.+|+.+|...|.+-+
T Consensus 3 ~ii~RINeLakK~K~-~gLT~eE~~Eq~~LR~eYl~~f 39 (76)
T PRK01631 3 NILFRINELSKKEKA-TGLTVDEKQEQQMLRQNYTQTF 39 (76)
T ss_pred hHHHHHHHHHHHhcc-cCCCHHHHHHHHHHHHHHHHHH
Confidence 578999999999886 6788888889999999998754
No 25
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=40.86 E-value=71 Score=27.41 Aligned_cols=36 Identities=28% Similarity=0.508 Sum_probs=26.5
Q ss_pred CcchhhHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Q 027051 176 PAAGNLVQKIESL----RKIEIELNKLEAEFLEKRRKEEA 211 (229)
Q Consensus 176 ~l~~~v~~~~~~l----~~~q~~~~~~~~~~~~e~~~le~ 211 (229)
.-|..|.+|-+++ +.+|+++|+.-++|.++...+|.
T Consensus 73 ~dpd~v~~rqEa~eaAR~RmQEE~dakA~~~kEKq~q~EE 112 (190)
T PF06936_consen 73 KDPDVVVRRQEAMEAARRRMQEELDAKAEEYKEKQKQEEE 112 (190)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666554 57999999999999887777764
No 26
>PF06322 Phage_NinH: Phage NinH protein; InterPro: IPR010454 This entry is represented by Bacteriophage 933W, NinH. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=38.62 E-value=23 Score=25.11 Aligned_cols=45 Identities=20% Similarity=0.287 Sum_probs=39.9
Q ss_pred CccccCCCCchHHHHHhcChhHHhhcchhhHHHhccchhceeeEc
Q 027051 1 MQNEEKGVPNFWLTAMKNNSLLAQEITKADEEALKYLIDIKSSRL 45 (229)
Q Consensus 1 ~~e~i~~IP~FW~~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~ 45 (229)
|+..|+.||+.-..+.-|-..++..++-.-.-+.+|+.|...+..
T Consensus 1 M~a~I~TIPelLi~~~GnqtEvaR~l~c~R~TVrKY~~D~~a~~H 45 (64)
T PF06322_consen 1 MNAEITTIPELLIETYGNQTEVARRLGCNRATVRKYSRDKDAKRH 45 (64)
T ss_pred CcceeeehhHHHHHHhCcHHHHHHHhcccHHHHHHHhcccccceE
Confidence 888999999998899999888998888888889999999988754
No 27
>PF06464 DMAP_binding: DMAP1-binding Domain; InterPro: IPR010506 This domain binds DMAP1, a transcriptional co-repressor.; GO: 0008134 transcription factor binding, 0005634 nucleus
Probab=37.53 E-value=55 Score=25.45 Aligned_cols=38 Identities=18% Similarity=0.428 Sum_probs=29.0
Q ss_pred CCcchhhHHHHHHHHHHHHHHHH--H-HHHHHHHHHHHHHHHHH
Q 027051 175 NPAAGNLVQKIESLRKIEIELNK--L-EAEFLEKRRKEEANYVK 215 (229)
Q Consensus 175 ~~l~~~v~~~~~~l~~~q~~~~~--~-~~~~~~e~~~le~~y~~ 215 (229)
-.||++|+.|+.. |..+.++ | +--|.++|++|=+.|..
T Consensus 3 s~LP~evq~~L~~---L~~el~~GdiT~KGY~kkr~~LL~~yl~ 43 (111)
T PF06464_consen 3 SSLPPEVQNRLQE---LDLELEEGDITQKGYEKKRSKLLAPYLP 43 (111)
T ss_pred ccCCHHHHHHHHH---HHHhhhcCcchHHHHHHHHHHHHHHHHh
Confidence 3699999987554 4555554 4 66799999999999984
No 28
>PF14942 Muted: Organelle biogenesis, Muted-like protein
Probab=37.09 E-value=78 Score=25.94 Aligned_cols=32 Identities=19% Similarity=0.400 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027051 185 IESLRKIEIELNKLEAEFLEKRRKEEANYVKL 216 (229)
Q Consensus 185 ~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~ 216 (229)
=+.+++++....+++..|.+....|..+|..|
T Consensus 110 e~f~~e~~~~~~~vdee~~~~~~~l~e~Y~~~ 141 (145)
T PF14942_consen 110 EEFMKEQQQKKQRVDEEFREKEERLKEQYSEM 141 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788999999999999999999999999876
No 29
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=36.66 E-value=80 Score=23.27 Aligned_cols=27 Identities=11% Similarity=0.240 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027051 186 ESLRKIEIELNKLEAEFLEKRRKEEAN 212 (229)
Q Consensus 186 ~~l~~~q~~~~~~~~~~~~e~~~le~~ 212 (229)
+.+-+|+.+|..+..+|.+|++.|.+.
T Consensus 46 ~~v~eLE~~h~kmK~~YEeEI~rLr~e 72 (79)
T PF08581_consen 46 QKVYELEQAHRKMKQQYEEEIARLRRE 72 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778888999999999999888654
No 30
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=35.40 E-value=90 Score=26.01 Aligned_cols=37 Identities=16% Similarity=0.373 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027051 182 VQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQ 218 (229)
Q Consensus 182 ~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~ 218 (229)
++.....+.+|-+.+++.++|.+.+.++.++..++|.
T Consensus 26 ~~~~~k~~~~~P~l~~i~~k~~~~~~~~~~~~~~l~k 62 (198)
T PF02096_consen 26 QRSSAKMQELQPELKEIQEKYKEDQQKMQQEMQKLYK 62 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 3444566778888888888888777777777777653
No 31
>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=35.30 E-value=75 Score=25.65 Aligned_cols=33 Identities=18% Similarity=0.326 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027051 184 KIESLRKIEIELNKLEAEFLEKRRKEEANYVKL 216 (229)
Q Consensus 184 ~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~ 216 (229)
-+.-|+.|+.++.+.+.+..+.+.+-|+--.++
T Consensus 102 Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v 134 (144)
T PF11221_consen 102 QLKRIKELEEENEEAEEELQEAVKEAEELLKQV 134 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346678889999999999999988888665554
No 32
>PF10417 1-cysPrx_C: C-terminal domain of 1-Cys peroxiredoxin; InterPro: IPR019479 This entry represents the C-terminal domain of 1-Cys peroxiredoxin, a member of the peroxiredoxin superfamily which protect cells against membrane oxidation through glutathione (GSH)-dependent reduction of phospholipid hydroperoxides to corresponding alcohols []. The C-terminal domain is crucial for providing the extra cysteine necessary for dimerisation of the whole molecule. Loss of the enzyme's peroxidase activity is associated with oxidation of the catalytic cysteine found upstream of this domain. Glutathionylation, presumably through its disruption of protein structure, facilitates access for GSH, resulting in spontaneous reduction of the mixed disulphide to the sulphydryl and consequent activation of the enzyme []. The domain is associated with IPR000866 from INTERPRO, which carries the catalytic cysteine. ; GO: 0051920 peroxiredoxin activity, 0055114 oxidation-reduction process; PDB: 1ZOF_E 2H01_A 3EMP_D 1YF1_G 1YF0_D 1N8J_C 1YEP_D 1YEX_D 2V41_H 2V32_C ....
Probab=34.78 E-value=9.8 Score=24.32 Aligned_cols=15 Identities=13% Similarity=0.499 Sum_probs=12.2
Q ss_pred eeeceeeeecCCCcc
Q 027051 85 AIGSKIKWYPEKCLT 99 (229)
Q Consensus 85 ~~~t~I~Wk~gkdlt 99 (229)
...||.+|++|.++-
T Consensus 9 ~v~tPanW~pGd~~i 23 (40)
T PF10417_consen 9 GVATPANWKPGDDVI 23 (40)
T ss_dssp SSBBCTTTCTTSGEB
T ss_pred CcccCcCCCCCCCeE
Confidence 357999999998764
No 33
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=34.33 E-value=61 Score=21.57 Aligned_cols=31 Identities=16% Similarity=0.191 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhh
Q 027051 187 SLRKIEIELNKLEAEF---LEKRRKEEANYVKLC 217 (229)
Q Consensus 187 ~l~~~q~~~~~~~~~~---~~e~~~le~~y~~~~ 217 (229)
|=.=||+.||-+|.+- -+++++||+|=+.|-
T Consensus 6 AkelLqe~~d~IEqkiedid~qIaeLe~KR~~Lv 39 (46)
T PF08946_consen 6 AKELLQEHYDNIEQKIEDIDEQIAELEAKRQRLV 39 (46)
T ss_dssp ---------THHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHhHHHHHHHHHHHHHHHHHHH
Confidence 3334677777776654 368889998877664
No 34
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=32.10 E-value=1.4e+02 Score=24.31 Aligned_cols=38 Identities=13% Similarity=0.246 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHhhccc
Q 027051 183 QKIESLRKIEIELNKL----------EAEFLEKRRKEEANYVKLCQPL 220 (229)
Q Consensus 183 ~~~~~l~~~q~~~~~~----------~~~~~~e~~~le~~y~~~~~pl 220 (229)
+||.-=.+|+.+..+| .+....|+-+++.||.+|+.-.
T Consensus 71 KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~~ 118 (135)
T KOG4196|consen 71 KRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNSA 118 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4555444555544444 3456788999999999998643
No 35
>PF03245 Phage_lysis: Bacteriophage Rz lysis protein; InterPro: IPR004929 Many bacteriophages with Gram-negative hosts contain two auxiliary lysis genes Rz and Rz1. These genes are nested, with Rz1 occupying the last third of Rz in a +1 reading frame. Both of these genes are required for host cell lysis if the outer membrane is stabilised by millimolar concentrations of divalent cations, but are otherwise uneccessary []. The Rz protein is believed to posses endopeptidase activity, while Rz1 encodes a prolipoprotein which, after cleavage by a signal peptidase, is located in the outer membrane. It has been suggested that these two proteins may form a complex which cleaves the oligopeptide crosslinks between glycosidic strands in the peptidoglycan and the Lpp lipoproteins of the outer bacterial membrane. For more information see []. This entry represents the Rz protein and related sequences. This family is not considered to be a peptidase according to the MEROPs database.; GO: 0019835 cytolysis
Probab=31.44 E-value=1.3e+02 Score=23.72 Aligned_cols=37 Identities=19% Similarity=0.283 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027051 182 VQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQ 218 (229)
Q Consensus 182 ~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~ 218 (229)
...++.++..|.+.++|..+|.+|+...++.=..|=.
T Consensus 20 ~~~i~~~~~~~~~la~ld~k~tkEL~~Ak~e~~~Lr~ 56 (125)
T PF03245_consen 20 NAAIEDMQQRQQALAALDAKYTKELADAKAEIDRLRA 56 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 4567788888999999999999999998887766643
No 36
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=29.92 E-value=1.3e+02 Score=22.73 Aligned_cols=49 Identities=27% Similarity=0.377 Sum_probs=32.3
Q ss_pred HhhhccccchhhhhccccCCccccccccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027051 144 TIKKEIVCHAISWFCGDATCGRRTKRKIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRK 208 (229)
Q Consensus 144 ~i~d~IiP~al~yy~g~~~~~~d~~~~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~ 208 (229)
++.++.+-.=+.||.-...+ +...|=.||++||.+.+-|-+.|+..-++
T Consensus 35 tvV~DwvnfYINYy~~~~~G----------------eqqeqdrAlqel~qeL~tla~pFL~Kyr~ 83 (89)
T PF09236_consen 35 TVVNDWVNFYINYYKKQMTG----------------EQQEQDRALQELQQELNTLANPFLAKYRA 83 (89)
T ss_dssp HHHHHHHHHHHHHHHTT--S----------------SHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcC----------------ChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555567777665443 33445679999999999999888865443
No 37
>PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, 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 []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F.
Probab=29.72 E-value=17 Score=31.15 Aligned_cols=26 Identities=15% Similarity=0.426 Sum_probs=14.6
Q ss_pred cccCCCcchhhHHHHHHHHHHHHHHH
Q 027051 171 IEYDNPAAGNLVQKIESLRKIEIELN 196 (229)
Q Consensus 171 ~~~~~~l~~~v~~~~~~l~~~q~~~~ 196 (229)
.....++|+.|+.|...|+++-.+.-
T Consensus 70 ~~~~~~~~e~v~~~f~~i~~~~~~~~ 95 (211)
T PF04546_consen 70 AADEGPDPEEVLERFDEIRKLYEKLQ 95 (211)
T ss_dssp -------HHHHHHHHHHHCCCHHHHC
T ss_pred hhhccCCHHHHHHHHHHHHHHHHHHH
Confidence 34667889999999998876554443
No 38
>PF13864 Enkurin: Calmodulin-binding
Probab=29.36 E-value=72 Score=23.96 Aligned_cols=22 Identities=18% Similarity=0.389 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027051 183 QKIESLRKIEIELNKLEAEFLE 204 (229)
Q Consensus 183 ~~~~~l~~~q~~~~~~~~~~~~ 204 (229)
.|...|.+|+..+++|..+|+.
T Consensus 41 ER~~lL~~Lk~~~~el~~ey~~ 62 (98)
T PF13864_consen 41 ERQELLEGLKKNWDELNKEYQK 62 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4889999999999999999875
No 39
>PHA00276 phage lambda Rz-like lysis protein
Probab=28.70 E-value=1e+02 Score=25.37 Aligned_cols=48 Identities=15% Similarity=0.263 Sum_probs=40.8
Q ss_pred cccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027051 171 IEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQ 218 (229)
Q Consensus 171 ~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~ 218 (229)
+.....+-.+-.+++.|...=|...+.|..+|++|+...+++..-|-.
T Consensus 30 ~~w~~~~~~e~~~~~~a~~~~QqaVaal~~~yqkEladaK~~~DrLia 77 (144)
T PHA00276 30 AKWKQEVQNEYVKKVEATADTQAAINAVSKEYQEDLAALEGSTDRVIA 77 (144)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 344466777888899999999999999999999999999999887754
No 40
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=28.20 E-value=2.8e+02 Score=21.63 Aligned_cols=58 Identities=10% Similarity=0.009 Sum_probs=39.8
Q ss_pred chhceeeEccCCCceEEEEEeC-CCCcccCceEEEEEEEecCCceeeeceeeceeeeecCCCcc
Q 027051 37 LIDIKSSRLVCCPEFKLEFFFG-PNPYFKNYVLAKKFIMIDEVKLIFDEAIGSKIKWYPEKCLT 99 (229)
Q Consensus 37 L~dI~ve~~~d~~~f~l~F~F~-~NpYF~N~vLtK~y~~~~~~~~~~~~~~~t~I~Wk~gkdlt 99 (229)
+.+|++....+...=+.+|.|. ++. ....++-=|.++++|+- ++.....+..+|++-.
T Consensus 14 ~p~VrLtRsrdg~~g~a~f~F~~~~~--~~~~itgm~liDeEGei---~tr~v~~KFvnGkp~~ 72 (104)
T PRK13611 14 PTQVRLLKSKTGKRGSAIFRFEDLKS--DTQNILGMRMIDEEGEL---TTRNIKAKFLNGEFKA 72 (104)
T ss_pred CCceEEEEccCCCccEEEEEEcCCcc--cccceeeEEEEccCCcE---EEEecceEEECCCccE
Confidence 7899999988877778999995 666 34677776666677753 3444445555676443
No 41
>PRK10780 periplasmic chaperone; Provisional
Probab=28.16 E-value=1.2e+02 Score=24.84 Aligned_cols=49 Identities=18% Similarity=0.167 Sum_probs=34.0
Q ss_pred ccccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 027051 170 KIEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPL 220 (229)
Q Consensus 170 ~~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl 220 (229)
+.||.|. ..+......-+.++.+....-..++.|+..+++.|+++++.|
T Consensus 25 KIg~Vd~--q~il~~~p~~k~~~~~le~~~~~~q~el~~~~~elq~~~~~~ 73 (165)
T PRK10780 25 KIAIVNM--GSIFQQVPQRTGVSKQLENEFKGRASELQRMETDLQAKMQKL 73 (165)
T ss_pred CeEEeeH--HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778776 456666666667776666666666777777777777776655
No 42
>PF11942 Spt5_N: Spt5 transcription elongation factor, acidic N-terminal; InterPro: IPR022581 This is the very acidic N-terminal domain of the early transcription elongation factor Spt5 []. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4 [], nor is it essential for RNA polymerase II binding [].
Probab=24.83 E-value=1.1e+02 Score=23.10 Aligned_cols=16 Identities=31% Similarity=0.310 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 027051 200 AEFLEKRRKEEANYVK 215 (229)
Q Consensus 200 ~~~~~e~~~le~~y~~ 215 (229)
+.-+.+...|++||.+
T Consensus 59 ae~lae~~k~~~RY~~ 74 (97)
T PF11942_consen 59 AEELAEYLKLSERYAR 74 (97)
T ss_pred HHHHHHHHHHHHHhcc
Confidence 4455555566777755
No 43
>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=24.43 E-value=1.9e+02 Score=22.88 Aligned_cols=45 Identities=13% Similarity=0.163 Sum_probs=32.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhcc
Q 027051 180 NLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTKV 224 (229)
Q Consensus 180 ~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~r 224 (229)
.|..--.+.+.++.+..+...+++.++..+++.++++++.|=..+
T Consensus 26 ~v~~~~~~~k~~~~~l~~~~~~~~~~l~~~~~el~~~~~~l~~~~ 70 (158)
T PF03938_consen 26 KVFQESPAGKDAQAKLQEKFKALQKELQAKQKELQKLQQKLQSQK 70 (158)
T ss_dssp HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-
T ss_pred HHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555667777778888888888888888888888877665543
No 44
>PF10153 DUF2361: Uncharacterised conserved protein (DUF2361); InterPro: IPR019310 This entry represents the rRNA-processing protein EFG1 family. EFG1 is involved in rRNA processing.
Probab=23.79 E-value=2.8e+02 Score=21.87 Aligned_cols=38 Identities=26% Similarity=0.302 Sum_probs=21.7
Q ss_pred CcchhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027051 176 PAAGNLVQKIE-SLRKIEIELNKLEAEFLEKRRKEEANYVK 215 (229)
Q Consensus 176 ~l~~~v~~~~~-~l~~~q~~~~~~~~~~~~e~~~le~~y~~ 215 (229)
.||++||.--+ +|.+|+.++.+ ++..+....+-.||.+
T Consensus 17 ~Lp~~vR~~~Er~L~~L~~~l~~--~~~~~~~kk~~~kYh~ 55 (114)
T PF10153_consen 17 DLPADVRVEKERELEALKRELEE--AERKEKEKKMAKKYHM 55 (114)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 68888875443 56666666555 3444444555555543
No 45
>PF06784 UPF0240: Uncharacterised protein family (UPF0240); InterPro: IPR009622 This is a group of proteins of unknown function.
Probab=23.45 E-value=57 Score=27.64 Aligned_cols=32 Identities=19% Similarity=0.387 Sum_probs=28.8
Q ss_pred HHHhcChhHHhhcchhhHHHhccchhceeeEc
Q 027051 14 TAMKNNSLLAQEITKADEEALKYLIDIKSSRL 45 (229)
Q Consensus 14 ~vl~N~~~l~~~I~~~De~iL~~L~dI~ve~~ 45 (229)
.++..+|.+...+...|..+++.|.+|.|+..
T Consensus 42 ~~~~~~pe~~eei~~Kd~~L~s~LK~VyV~S~ 73 (179)
T PF06784_consen 42 EVLEDDPEIKEEISRKDDKLLSRLKDVYVTSK 73 (179)
T ss_pred HHhhhChHHHHHHHhhhHHHHHhhceeEeecC
Confidence 46788999999999999999999999999865
No 46
>PRK09343 prefoldin subunit beta; Provisional
Probab=22.40 E-value=3.1e+02 Score=21.41 Aligned_cols=46 Identities=20% Similarity=0.167 Sum_probs=30.3
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhc
Q 027051 178 AGNLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDTK 223 (229)
Q Consensus 178 ~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~~ 223 (229)
-.+|..|++.+..--+....-...-++...+++.+...+.+.+|.+
T Consensus 73 ~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~~~~ 118 (121)
T PRK09343 73 EKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKYYPQ 118 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3477788887765555555555556666677777777777766654
No 47
>PRK00145 putative inner membrane protein translocase component YidC; Provisional
Probab=22.28 E-value=1.5e+02 Score=25.81 Aligned_cols=36 Identities=22% Similarity=0.370 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 182 VQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 182 ~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
.+....++.+|-+.+++.++|.....++.++-.+||
T Consensus 54 ~~~~~km~~iqP~~~~i~~k~k~d~~~~~~e~~~Ly 89 (223)
T PRK00145 54 TKSSLRMNEIQPEIKKLQAKYKNDPQKLQQEMMKLY 89 (223)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHH
Confidence 344556778888888998888876666665555555
No 48
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=22.21 E-value=3.2e+02 Score=21.70 Aligned_cols=43 Identities=21% Similarity=0.383 Sum_probs=34.7
Q ss_pred cchhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 027051 177 AAGNLVQKIES----LRKIEIELNKLEAEFLEKRRKEEANYVKLCQPL 220 (229)
Q Consensus 177 l~~~v~~~~~~----l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl 220 (229)
.-.+|.+|++- ++.+..+...++.+|.+-|.++ ++|++-+||-
T Consensus 70 Ar~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v-~k~Q~~~q~~ 116 (120)
T KOG3478|consen 70 ARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQREAV-IKLQQAAQPA 116 (120)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhccc
Confidence 45689999986 5678888888899998888777 6788888874
No 49
>KOG0574 consensus STE20-like serine/threonine kinase MST [Signal transduction mechanisms]
Probab=21.17 E-value=1.1e+02 Score=28.92 Aligned_cols=36 Identities=17% Similarity=0.315 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchh
Q 027051 187 SLRKIEIELNKLEAEFLEKRRKEEANYVKLCQPLDT 222 (229)
Q Consensus 187 ~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~~pl~~ 222 (229)
.|.+||...-.|.-.+..|+.+|..+|..+-||+|.
T Consensus 455 ~~e~Lq~rl~alDpmme~eieelrq~y~skrqpIld 490 (502)
T KOG0574|consen 455 TLEELQMRLKALDPMMEREIEELRQRYTSKRQPILD 490 (502)
T ss_pred cHHHHHHHHHhcCHHHHHHHHHHHHHHhhccccHHH
Confidence 466788888888888889999999999999999985
No 50
>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. The specific function of FCH domain Only 2 (FCHO2) is still unknown. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO1 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=20.98 E-value=83 Score=28.12 Aligned_cols=34 Identities=21% Similarity=0.382 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027051 180 NLVQKIESLRKIEIELNKLEAEFLEKRRKEEANYVKLC 217 (229)
Q Consensus 180 ~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le~~y~~~~ 217 (229)
.+..|+.. =....++| +.|.+||+++|..|.+--
T Consensus 16 ~L~~r~k~---g~~~~kel-~~f~keRa~iEe~Yak~L 49 (269)
T cd07673 16 VLYHNMKH---GQISTKEL-SDFIRERATIEEAYSRSM 49 (269)
T ss_pred HHHHHHHH---HHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 35555532 23334444 368888888888887643
No 51
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.34 E-value=2e+02 Score=23.42 Aligned_cols=13 Identities=31% Similarity=0.419 Sum_probs=8.6
Q ss_pred HHHHHHHhhccch
Q 027051 209 EEANYVKLCQPLD 221 (229)
Q Consensus 209 le~~y~~~~~pl~ 221 (229)
|-.-|++||+=+-
T Consensus 71 l~~dYqklyqHmA 83 (138)
T COG3105 71 LAQDYQKLYQHMA 83 (138)
T ss_pred HHHHHHHHHHHHH
Confidence 4456888887654
No 52
>PHA03161 hypothetical protein; Provisional
Probab=20.29 E-value=2.1e+02 Score=23.74 Aligned_cols=40 Identities=5% Similarity=-0.065 Sum_probs=33.5
Q ss_pred cccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027051 171 IEYDNPAAGNLVQKIESLRKIEIELNKLEAEFLEKRRKEE 210 (229)
Q Consensus 171 ~~~~~~l~~~v~~~~~~l~~~q~~~~~~~~~~~~e~~~le 210 (229)
.-....|+.=-+++|+.+..|+...++|.+...-|+..|+
T Consensus 74 ~kE~~~L~~fd~kkl~~~E~L~drv~eLkeel~~ELe~l~ 113 (150)
T PHA03161 74 KKELSLLKAFDRHKLSAAEDLQDKILELKEDIHFEIEALN 113 (150)
T ss_pred HHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3345567777789999999999999999999999988876
Done!