Query 036431
Match_columns 163
No_of_seqs 123 out of 143
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 12:36:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036431.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036431hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1922 Rho GTPase effector BN 99.8 1.3E-19 2.8E-24 171.5 9.8 148 7-160 653-830 (833)
2 smart00498 FH2 Formin Homology 99.1 1.4E-10 2.9E-15 103.8 7.7 102 10-111 295-432 (432)
3 PF02181 FH2: Formin Homology 98.2 2.9E-06 6.3E-11 73.5 7.1 76 11-86 250-327 (370)
4 smart00498 FH2 Formin Homology 97.0 0.0038 8.3E-08 56.2 8.9 94 18-112 259-379 (432)
5 KOG1924 RhoA GTPase effector D 92.8 0.29 6.3E-06 49.1 6.6 69 18-86 877-947 (1102)
6 KOG1925 Rac1 GTPase effector F 87.6 4.8 0.0001 39.2 9.6 66 20-85 531-597 (817)
7 KOG1923 Rac1 GTPase effector F 46.5 49 0.0011 33.5 5.9 42 15-56 619-660 (830)
8 PRK14139 heat shock protein Gr 30.6 1.3E+02 0.0027 25.1 5.2 67 36-110 33-99 (185)
9 PRK15365 type III secretion sy 30.1 74 0.0016 24.6 3.4 29 30-58 4-32 (107)
10 COG0051 RpsJ Ribosomal protein 29.4 46 0.001 25.5 2.2 17 101-117 16-32 (104)
11 PRK14140 heat shock protein Gr 28.5 1.6E+02 0.0035 24.6 5.5 69 34-110 36-104 (191)
12 PRK14155 heat shock protein Gr 28.2 1.2E+02 0.0026 25.7 4.7 20 37-56 15-34 (208)
13 PRK14163 heat shock protein Gr 26.7 1.6E+02 0.0034 25.2 5.2 64 38-109 43-106 (214)
14 PRK14154 heat shock protein Gr 26.1 1.7E+02 0.0037 24.8 5.3 38 73-110 82-119 (208)
15 COG0146 HyuB N-methylhydantoin 25.1 1.3E+02 0.0029 29.3 4.9 57 26-86 170-226 (563)
16 PF10923 DUF2791: P-loop Domai 23.8 1.7E+02 0.0037 27.2 5.2 75 31-107 324-398 (416)
17 PF08336 P4Ha_N: Prolyl 4-Hydr 23.7 1.3E+02 0.0029 22.7 3.9 20 87-106 57-76 (134)
18 PRK14157 heat shock protein Gr 23.5 1.5E+02 0.0033 25.5 4.6 64 37-109 79-143 (227)
19 PF06013 WXG100: Proteins of 1 23.2 2.2E+02 0.0047 18.3 5.6 62 35-112 4-76 (86)
20 PF14615 Rsa3: Ribosome-assemb 22.6 62 0.0013 21.4 1.6 34 18-51 10-43 (47)
21 PF07544 Med9: RNA polymerase 20.9 1.3E+02 0.0028 21.5 3.1 36 26-61 12-47 (83)
22 PF03511 Fanconi_A: Fanconi an 20.8 91 0.002 22.2 2.2 23 97-120 27-49 (64)
23 COG4903 ComK Genetic competenc 20.1 69 0.0015 27.0 1.7 28 87-121 38-65 (190)
No 1
>KOG1922 consensus Rho GTPase effector BNI1 and related formins [Signal transduction mechanisms; Cytoskeleton]
Probab=99.80 E-value=1.3e-19 Score=171.52 Aligned_cols=148 Identities=21% Similarity=0.318 Sum_probs=120.9
Q ss_pred hhHHHHhcChhhhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHH-hcccc---ccCchHHHHHHHHHHHHH
Q 036431 7 RDNEYLKQGLPAVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVT-RCASS---ERGGFLKEMKAFLEDCEE 82 (163)
Q Consensus 7 ~e~ey~~lGL~vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~-~~~~~---e~~~F~~~M~~Fl~~AEe 82 (163)
.++.|+++|+++|.+++.||.||++||.||+++|...|++|..|+.+++..+. ...++ ..++|...|+.|+..||.
T Consensus 653 ~~~~~~~~~~~~~~~~~~~l~~v~~aa~i~~~~l~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~fl~~ae~ 732 (833)
T KOG1922|consen 653 DVEKSRRLGLPSLLKFLSDLSNVESAAKIDLEVLAEECSDLKKGLEKVKRELPTASKNESLPPGDPFSKVKKEFLSSAEK 732 (833)
T ss_pred hhhhhhhccchhhhcccchhcccchhhccCHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCccchhhhhhhhhhhhHHH
Confidence 56799999999999999999999999999999999999999999999999885 54333 358999999999999999
Q ss_pred hhcc--------------------------cCCceeehhHHHHHHhHHHHHHHHHHHhhhccCCCCCCCCCCCCCCcccc
Q 036431 83 ELKL--------------------------EHPLQLFVIVKEFLSMVDRVCADISRNLQKKNGTTSASSPPPLSPPIRSL 136 (163)
Q Consensus 83 Ei~~--------------------------~~plriFvIVRDFL~mLD~vCkEv~~~~q~~~~~~s~~ss~p~~p~~r~~ 136 (163)
|+.. .+++++|+||||||.|+|+||+|+++..++..+. + ...+..+.+
T Consensus 733 ev~~l~~~~~~~~~~~~~~~~yf~~~~~~~~~~~~~f~~~r~fl~~~~~~~~e~~~~~~k~~~~-~-----~~~~~~~~~ 806 (833)
T KOG1922|consen 733 EVKLLISEEREVRESVKKTAKYFGEDPKEEITPEQVFSILRDFLRTFDKAHEENKKAEEKEKTY-E-----AEEKRANKE 806 (833)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-c-----ccccccccc
Confidence 9865 6889999999999999999999998754433322 1 222334566
Q ss_pred ccccCcchhhhhhhhccCCCCCCC
Q 036431 137 VKFINLPKQFMSDIRAATYSSESN 160 (163)
Q Consensus 137 ~~Fp~~~~~~m~~~s~~~sss~sd 160 (163)
..++.++..++....+.++++.++
T Consensus 807 ~~~~~~~~~~~~~~~~~~~~~~~~ 830 (833)
T KOG1922|consen 807 AELEELKNISQAVSKRTSDSESSL 830 (833)
T ss_pred cccccccccccccccccccccccc
Confidence 778888888877766555555444
No 2
>smart00498 FH2 Formin Homology 2 Domain. FH proteins control rearrangements of the actin cytoskeleton, especially in the context of cytokinesis and cell polarisation. Members of this family have been found to interact with Rho-GTPases, profilin and other actin-assoziated proteins. These interactions are mediated by the proline-rich FH1 domain, usually located in front of FH2 (but not listed in SMART). Despite this cytosolic function, vertebrate formins have been assigned functions within the nucleus. A set of Formin-Binding Proteins (FBPs) has been shown to bind FH1 with their WW domain.
Probab=99.12 E-value=1.4e-10 Score=103.76 Aligned_cols=102 Identities=25% Similarity=0.370 Sum_probs=87.4
Q ss_pred HHHhcChhhhhcCchhhhhh----hHhhhcchhHHHHHHHHHhhhHHHHHHHHHhcccc---cc--CchHHHHHHHHHHH
Q 036431 10 EYLKQGLPAVEGLSNEFTNV----KKAARIEHDTFINTCSSLGSRVVEIRQLVTRCASS---ER--GGFLKEMKAFLEDC 80 (163)
Q Consensus 10 ey~~lGL~vVsgLssEL~NV----KKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~~---e~--~~F~~~M~~Fl~~A 80 (163)
++...||+.+.+++.++.+| .++|..+++.|...+.++...+.++.++...+... ++ +.|.+-|..|.+.+
T Consensus 295 e~~~~~l~~~~~~~d~f~~~m~~F~~~a~~~~~~l~~~~~~~~~~~~~~~~yfge~~~~~~~~efF~~f~~F~~~f~ka~ 374 (432)
T smart00498 295 ETDLGGLSDPENLDDKFIEVMKPFLKAAKEKYDKLQKDLSDLKTRFEKLVEYYGEDPKDTSPEEFFKDFNEFLKEFSKAA 374 (432)
T ss_pred HHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 45567888888999999999 99999999999999999999999999988765432 11 56778888888888
Q ss_pred HHhhcc---------------------------cCCceeehhHHHHHHhHHHHHHHHH
Q 036431 81 EEELKL---------------------------EHPLQLFVIVKEFLSMVDRVCADIS 111 (163)
Q Consensus 81 EeEi~~---------------------------~~plriFvIVRDFL~mLD~vCkEv~ 111 (163)
+++++. +||+++|++|+||++|+|++|++++
T Consensus 375 ~en~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~d~~~~~~~ 432 (432)
T smart00498 375 EENIKKEEEEEERRKQLVKETTEYEQSSSRQKERNPSMDFEVERDFLGVLDSLLEELG 432 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccchhhhhhhhhhhhhHHHHHHhhC
Confidence 877643 7999999999999999999999973
No 3
>PF02181 FH2: Formin Homology 2 Domain; InterPro: IPR015425 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain is required for the self-association of formin proteins through the ability of FH2 domains to directly bind each other [], and may also act to inhibit actin polymerisation []. The FH3 domain (IPR010472 from INTERPRO) is less well conserved and may be important for determining intracellular localisation of formin family proteins. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH2 domain, which was shown by X-ray crystallography to have an elongated, crescent shape containing three helical subdomains [].; PDB: 1Y64_B 1UX4_A 1UX5_A 3O4X_H 3OBV_E 1V9D_D 2Z6E_B 2J1D_G.
Probab=98.24 E-value=2.9e-06 Score=73.47 Aligned_cols=76 Identities=22% Similarity=0.415 Sum_probs=64.7
Q ss_pred HHhcChhhhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhccc--cccCchHHHHHHHHHHHHHhhcc
Q 036431 11 YLKQGLPAVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRCAS--SERGGFLKEMKAFLEDCEEELKL 86 (163)
Q Consensus 11 y~~lGL~vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~--~e~~~F~~~M~~Fl~~AEeEi~~ 86 (163)
+...+.+-+..+..||..|.+|+.+|.+.|...+..|..++.+++..+..... +.++.|...|..|++.|+.++..
T Consensus 250 ~~~~~~~~~~~~~~eL~~v~~a~~~~~~~l~~~i~~l~~~~~~~~~~l~~~~~~~~~~~~f~~~~~~f~~~~~~~~~~ 327 (370)
T PF02181_consen 250 IVEEKFPDLLDLEDELSSVEKASKVSLDELEQDIKELEKGLEKIKKELEAIEKDEEDDDKFKEKMKEFLEEAETKLDE 327 (370)
T ss_dssp HHHTTSGGGGGHHHHTTTHHHCCTS-HHHHHHHHHHHHHHHHHHHHHHHHCCTTSSTT-THHHHHHHHHHHHHHHHHH
T ss_pred HHHhcChHHhccHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhccccccchhhhhHHHHHHHHHHHHHHHH
Confidence 44446677888999999999999999999999999999999999999988754 34589999999999999988854
No 4
>smart00498 FH2 Formin Homology 2 Domain. FH proteins control rearrangements of the actin cytoskeleton, especially in the context of cytokinesis and cell polarisation. Members of this family have been found to interact with Rho-GTPases, profilin and other actin-assoziated proteins. These interactions are mediated by the proline-rich FH1 domain, usually located in front of FH2 (but not listed in SMART). Despite this cytosolic function, vertebrate formins have been assigned functions within the nucleus. A set of Formin-Binding Proteins (FBPs) has been shown to bind FH1 with their WW domain.
Probab=97.03 E-value=0.0038 Score=56.19 Aligned_cols=94 Identities=15% Similarity=0.259 Sum_probs=76.1
Q ss_pred hhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhccc--cccCchHHHHHHHHHHHHHhhcc---------
Q 036431 18 AVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRCAS--SERGGFLKEMKAFLEDCEEELKL--------- 86 (163)
Q Consensus 18 vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~--~e~~~F~~~M~~Fl~~AEeEi~~--------- 86 (163)
-+..+..||..|.+|+.++ +.|...+..|..++..+..-+..... +.++.|...|..|++.|+.++..
T Consensus 259 ~~~~f~~el~~v~~askvs-~~l~~~~~~l~~~~~~~e~~~~~l~~~~~~~d~f~~~m~~F~~~a~~~~~~l~~~~~~~~ 337 (432)
T smart00498 259 DLLDFYSDLHHLDKAKVNL-EQLEKDVKQLERQIKNLETDLGGLSDPENLDDKFIEVMKPFLKAAKEKYDKLQKDLSDLK 337 (432)
T ss_pred hhccchhhhccHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566899999999999999 99999999999999988764443322 22378999999999999988754
Q ss_pred ----------------cCCceeehhHHHHHHhHHHHHHHHHH
Q 036431 87 ----------------EHPLQLFVIVKEFLSMVDRVCADISR 112 (163)
Q Consensus 87 ----------------~~plriFvIVRDFL~mLD~vCkEv~~ 112 (163)
..|=-.|-++.+|+..+.++++|-.+
T Consensus 338 ~~~~~~~~yfge~~~~~~~~efF~~f~~F~~~f~ka~~en~~ 379 (432)
T smart00498 338 TRFEKLVEYYGEDPKDTSPEEFFKDFNEFLKEFSKAAEENIK 379 (432)
T ss_pred HHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 23455778999999999999988654
No 5
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=92.83 E-value=0.29 Score=49.06 Aligned_cols=69 Identities=16% Similarity=0.366 Sum_probs=60.3
Q ss_pred hhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhcc--ccccCchHHHHHHHHHHHHHhhcc
Q 036431 18 AVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRCA--SSERGGFLKEMKAFLEDCEEELKL 86 (163)
Q Consensus 18 vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~--~~e~~~F~~~M~~Fl~~AEeEi~~ 86 (163)
=+.....||..|-||.-+.+|.+..++..+...+.++..-+..+. ..+.+.|.+.|..|.+.|.++...
T Consensus 877 d~l~F~ddl~hv~kaSrvnad~ikK~~~~m~~~ik~Le~dlk~~~~~~~e~dkF~ekM~~F~e~a~eq~~~ 947 (1102)
T KOG1924|consen 877 DILKFPDDLEHVEKASRVNADEIKKNLQQMENQIKKLERDLKNFKIAGNEHDKFVEKMTSFHEKAREQYSK 947 (1102)
T ss_pred hhhcchhhHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcchhhHHHHhhHHHHHHHHHHHH
Confidence 356778899999999999999999999999999999998887764 235689999999999999988754
No 6
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=87.56 E-value=4.8 Score=39.19 Aligned_cols=66 Identities=15% Similarity=0.339 Sum_probs=47.7
Q ss_pred hcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhccccc-cCchHHHHHHHHHHHHHhhc
Q 036431 20 EGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRCASSE-RGGFLKEMKAFLEDCEEELK 85 (163)
Q Consensus 20 sgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~~e-~~~F~~~M~~Fl~~AEeEi~ 85 (163)
+.|=+|+.-|-+.|-+|++-|.-++-.|...-.---+-|.....-| .-.....|..||+++.+.|.
T Consensus 531 sDLYSEiGA~tRSAkVDf~qL~DNL~qlErrCKaSWe~L~~Iakhe~~p~l~~r~~~fl~~cA~RI~ 597 (817)
T KOG1925|consen 531 SDLYSEIGALTRSAKVDFEQLTDNLGQLERRCKASWESLRSIAKHELAPALRARLTHFLDQCARRIA 597 (817)
T ss_pred hhHHHHhHhhhhhhhccHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHH
Confidence 5677899999999999999999988888776544334333322111 13577889999999888774
No 7
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=46.53 E-value=49 Score=33.46 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=37.3
Q ss_pred ChhhhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhHHHHHH
Q 036431 15 GLPAVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRVVEIRQ 56 (163)
Q Consensus 15 GL~vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ 56 (163)
-|+-+.+-.+||.=|-||++.++++....|-.|..|..-++.
T Consensus 619 klp~l~~F~~el~~~eKa~av~lesV~~Dv~eL~~g~~l~~k 660 (830)
T KOG1923|consen 619 KLPALQLFFSELDFVEKATAVQLESVLADVKELNAGMTLAEK 660 (830)
T ss_pred hhHHHHhhHHHhhccchhhhhhhhccchhHHHHHhHHHHHHH
Confidence 356677888999999999999999999999999999987764
No 8
>PRK14139 heat shock protein GrpE; Provisional
Probab=30.63 E-value=1.3e+02 Score=25.07 Aligned_cols=67 Identities=10% Similarity=0.158 Sum_probs=35.1
Q ss_pred chhHHHHHHHHHhhhHHHHHHHHHhccccccCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHHHHH
Q 036431 36 EHDTFINTCSSLGSRVVEIRQLVTRCASSERGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVCADI 110 (163)
Q Consensus 36 D~d~L~~~vskL~~gl~ki~~ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vCkEv 110 (163)
+.+.|...+.+|...+.++++-+- +=...+..|-++++.|+....-.-+=-+++|||-++|..++=+
T Consensus 33 e~~~l~~~l~~le~e~~elkd~~l--------R~~AefeN~rKR~~kE~e~~~~~a~~~~~~~LLpv~DnLerAl 99 (185)
T PRK14139 33 AAPALEAELAEAEAKAAELQDSFL--------RAKAETENVRRRAQEDVAKAHKFAIESFAESLLPVKDSLEAAL 99 (185)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHH
Confidence 345555556666666655554221 1122344555555555544333333446677777777766544
No 9
>PRK15365 type III secretion system chaperone SseA; Provisional
Probab=30.08 E-value=74 Score=24.64 Aligned_cols=29 Identities=24% Similarity=0.180 Sum_probs=25.9
Q ss_pred hHhhhcchhHHHHHHHHHhhhHHHHHHHH
Q 036431 30 KKAARIEHDTFINTCSSLGSRVVEIRQLV 58 (163)
Q Consensus 30 KKAA~iD~d~L~~~vskL~~gl~ki~~ll 58 (163)
|||+--+++-|-+..++|.+.|.|.+++-
T Consensus 4 ~~~~~~~l~DL~~rYs~L~s~lkKfkq~q 32 (107)
T PRK15365 4 KKAAFSEYRDLEQSYMQLNHCLKKFHQIR 32 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888899999999999999999998754
No 10
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=29.38 E-value=46 Score=25.53 Aligned_cols=17 Identities=24% Similarity=0.679 Sum_probs=13.1
Q ss_pred HhHHHHHHHHHHHhhhc
Q 036431 101 SMVDRVCADISRNLQKK 117 (163)
Q Consensus 101 ~mLD~vCkEv~~~~q~~ 117 (163)
..||++|++|.+..++.
T Consensus 16 ~~LD~~~~~Ive~akrt 32 (104)
T COG0051 16 RLLDQVCREIVETAKRT 32 (104)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 36999999998865443
No 11
>PRK14140 heat shock protein GrpE; Provisional
Probab=28.52 E-value=1.6e+02 Score=24.57 Aligned_cols=69 Identities=9% Similarity=0.118 Sum_probs=38.1
Q ss_pred hcchhHHHHHHHHHhhhHHHHHHHHHhccccccCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHHHHH
Q 036431 34 RIEHDTFINTCSSLGSRVVEIRQLVTRCASSERGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVCADI 110 (163)
Q Consensus 34 ~iD~d~L~~~vskL~~gl~ki~~ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vCkEv 110 (163)
.-.++-|...+.+|...+..+++-+. +-...+..|-++++.|+....-+-+--+++|||.++|...+=+
T Consensus 36 ~~~~~~l~~~i~~l~~ei~elkd~~l--------R~~Ae~eN~rkR~~rE~~~~~~~a~~~~~~~LLpvlDnLerAl 104 (191)
T PRK14140 36 AELLDEEQAKIAELEAKLDELEERYL--------RLQADFENYKRRIQKENEAAEKYRAQSLASDLLPALDNFERAL 104 (191)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455555555555555544221 1223345566666666665555555667777877777765543
No 12
>PRK14155 heat shock protein GrpE; Provisional
Probab=28.20 E-value=1.2e+02 Score=25.65 Aligned_cols=20 Identities=15% Similarity=0.267 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHhhhHHHHHH
Q 036431 37 HDTFINTCSSLGSRVVEIRQ 56 (163)
Q Consensus 37 ~d~L~~~vskL~~gl~ki~~ 56 (163)
.+.|...+.+|...+.++++
T Consensus 15 ~~~l~~~l~~le~e~~elkd 34 (208)
T PRK14155 15 ADDAAQEIEALKAEVAALKD 34 (208)
T ss_pred ccchHHHHHHHHHHHHHHHH
Confidence 34444555555555555443
No 13
>PRK14163 heat shock protein GrpE; Provisional
Probab=26.69 E-value=1.6e+02 Score=25.16 Aligned_cols=64 Identities=11% Similarity=0.142 Sum_probs=34.4
Q ss_pred hHHHHHHHHHhhhHHHHHHHHHhccccccCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHHHH
Q 036431 38 DTFINTCSSLGSRVVEIRQLVTRCASSERGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVCAD 109 (163)
Q Consensus 38 d~L~~~vskL~~gl~ki~~ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vCkE 109 (163)
+.|...+..|...+.++++-+. +-...+..|-++++.|+....-+-+--+++|||-++|...+=
T Consensus 43 ~~l~~~l~~l~~e~~el~d~~l--------R~~AEfeN~rkR~~kE~e~~~~~a~~~~~~~LLpVlDnLerA 106 (214)
T PRK14163 43 AGLTAQLDQVRTALGERTADLQ--------RLQAEYQNYRRRVERDRVTVKEIAVANLLSELLPVLDDVGRA 106 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhHHHHH
Confidence 3444445555555555444221 123345555666666665544445556677777777766544
No 14
>PRK14154 heat shock protein GrpE; Provisional
Probab=26.10 E-value=1.7e+02 Score=24.80 Aligned_cols=38 Identities=13% Similarity=0.159 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHHHHH
Q 036431 73 MKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVCADI 110 (163)
Q Consensus 73 M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vCkEv 110 (163)
+..|-++++.|+....-.-+--+++|||-++|..++-+
T Consensus 82 feNyRKR~~kE~e~~~~~a~e~~~~~LLpVlDnLeRAL 119 (208)
T PRK14154 82 MDNLRKRIEREKADIIKFGSKQLITDLLPVADSLIHGL 119 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHH
Confidence 33444455555544444444456677777777666554
No 15
>COG0146 HyuB N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.05 E-value=1.3e+02 Score=29.28 Aligned_cols=57 Identities=14% Similarity=0.180 Sum_probs=42.0
Q ss_pred hhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhccccccCchHHHHHHHHHHHHHhhcc
Q 036431 26 FTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRCASSERGGFLKEMKAFLEDCEEELKL 86 (163)
Q Consensus 26 L~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~ 86 (163)
+.|+|.- .--.-=|.+-|+.+..|..+|++++...+.+ .+.+.|+.++++||+-++.
T Consensus 170 ~~N~r~P-~~~igDlkAqIAA~~~g~~~v~~li~~yG~~---~v~~~m~~~~~~ae~~~r~ 226 (563)
T COG0146 170 LRNVRTP-DYNIGDLKAQIAANLKGRRRVRELIDEYGLD---TVEEAMKEVIEYAERAVRA 226 (563)
T ss_pred HhcCCCc-chhchhHHHHHHHHHHHHHHHHHHHHHhCHH---HHHHHHHHHHHHHHHHHHH
Confidence 4556554 1122236778888899999999999886643 5999999999999986643
No 16
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=23.82 E-value=1.7e+02 Score=27.21 Aligned_cols=75 Identities=17% Similarity=0.177 Sum_probs=46.0
Q ss_pred HhhhcchhHHHHHHHHHhhhHHHHHHHHHhccccccCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHH
Q 036431 31 KAARIEHDTFINTCSSLGSRVVEIRQLVTRCASSERGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVC 107 (163)
Q Consensus 31 KAA~iD~d~L~~~vskL~~gl~ki~~ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vC 107 (163)
+|..|++..|.. ..|..=+.||+++-...-..+..-=-+.++.|++++-..+-.+-.+--=.++|+|+.+||.+.
T Consensus 324 ~~pvIrL~~l~~--eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~~~r~G~~~~~tPR~~ik~fv~~Ld~~~ 398 (416)
T PF10923_consen 324 RAPVIRLQPLTP--EELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHVAGRLGGDVFVTPREFIKDFVDVLDILE 398 (416)
T ss_pred cCceecCCCCCH--HHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHhccCcccccCHHHHHHHHHHHHHHHH
Confidence 566777777753 345555667777665542222222235678888888877654333322246899999999875
No 17
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=23.72 E-value=1.3e+02 Score=22.70 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=15.2
Q ss_pred cCCceeehhHHHHHHhHHHH
Q 036431 87 EHPLQLFVIVKEFLSMVDRV 106 (163)
Q Consensus 87 ~~plriFvIVRDFL~mLD~v 106 (163)
.||+.-|.++|=|-.=--++
T Consensus 57 ~nPlnaF~LIrRl~~dW~~~ 76 (134)
T PF08336_consen 57 SNPLNAFSLIRRLHQDWPKW 76 (134)
T ss_pred hcHHHHHHHHHHHHHhhhhH
Confidence 79999999998776554444
No 18
>PRK14157 heat shock protein GrpE; Provisional
Probab=23.45 E-value=1.5e+02 Score=25.50 Aligned_cols=64 Identities=11% Similarity=0.115 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHhhhHHHHHH-HHHhccccccCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhHHHHHHH
Q 036431 37 HDTFINTCSSLGSRVVEIRQ-LVTRCASSERGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMVDRVCAD 109 (163)
Q Consensus 37 ~d~L~~~vskL~~gl~ki~~-ll~~~~~~e~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mLD~vCkE 109 (163)
-+.|..-+..|...+.+.++ ++... ..+..|-++++.|+....-+-+--+++|||-+||...+=
T Consensus 79 ~~~~~~~l~~le~e~~e~kd~llR~~---------AEfeNyRKR~~rE~e~~~~~a~~~~~~dLLpvlDnLeRA 143 (227)
T PRK14157 79 SDDTLTPLGQAKKEAAEYLEALQRER---------AEFINYRNRTQKEQDRFRQHGIIDVLTALLPALDDIDRI 143 (227)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence 34566666677766666665 22221 122333344444443323333445666666666655443
No 19
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=23.20 E-value=2.2e+02 Score=18.33 Aligned_cols=62 Identities=6% Similarity=0.258 Sum_probs=38.5
Q ss_pred cchhHHHHHHHHHhhhHHHHHHHHHhc-------c---ccc-cCchHHHHHHHHHHHHHhhcccCCceeehhHHHHHHhH
Q 036431 35 IEHDTFINTCSSLGSRVVEIRQLVTRC-------A---SSE-RGGFLKEMKAFLEDCEEELKLEHPLQLFVIVKEFLSMV 103 (163)
Q Consensus 35 iD~d~L~~~vskL~~gl~ki~~ll~~~-------~---~~e-~~~F~~~M~~Fl~~AEeEi~~~~plriFvIVRDFL~mL 103 (163)
+|++.|...+..|......++..+..+ . .+. ...|...+..|...+ ++....|
T Consensus 4 vd~~~l~~~a~~~~~~~~~l~~~~~~l~~~~~~l~~~W~G~a~~af~~~~~~~~~~~----------------~~~~~~L 67 (86)
T PF06013_consen 4 VDPEQLRAAAQQLQAQADELQSQLQQLESSIDSLQASWQGEAADAFQDKFEEWNQAF----------------RQLNEAL 67 (86)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGBTSSTSHHHHHHHHHHHHHH----------------HHHHHHH
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCchHHHHHHHHHHHHHHHH----------------HHHHHHH
Confidence 577777777777777766666655433 1 122 257888888887764 3455555
Q ss_pred HHHHHHHHH
Q 036431 104 DRVCADISR 112 (163)
Q Consensus 104 D~vCkEv~~ 112 (163)
+..++.+..
T Consensus 68 ~~~~~~l~~ 76 (86)
T PF06013_consen 68 EELSQALRQ 76 (86)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 555555543
No 20
>PF14615 Rsa3: Ribosome-assembly protein 3
Probab=22.57 E-value=62 Score=21.40 Aligned_cols=34 Identities=9% Similarity=0.219 Sum_probs=29.2
Q ss_pred hhhcCchhhhhhhHhhhcchhHHHHHHHHHhhhH
Q 036431 18 AVEGLSNEFTNVKKAARIEHDTFINTCSSLGSRV 51 (163)
Q Consensus 18 vVsgLssEL~NVKKAA~iD~d~L~~~vskL~~gl 51 (163)
+..+.+.+|..+|||-.+....|.--+..|..|.
T Consensus 10 ~t~efgdDLd~lR~~~dF~~~sl~~Li~aL~~G~ 43 (47)
T PF14615_consen 10 LTDEFGDDLDELRKAPDFTDKSLPLLIDALQQGT 43 (47)
T ss_pred HHHHHHHHHHHHhcCCCCCchhHHHHHHHHHhcc
Confidence 4567789999999999999999998888888774
No 21
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=20.85 E-value=1.3e+02 Score=21.50 Aligned_cols=36 Identities=11% Similarity=0.222 Sum_probs=30.5
Q ss_pred hhhhhHhhhcchhHHHHHHHHHhhhHHHHHHHHHhc
Q 036431 26 FTNVKKAARIEHDTFINTCSSLGSRVVEIRQLVTRC 61 (163)
Q Consensus 26 L~NVKKAA~iD~d~L~~~vskL~~gl~ki~~ll~~~ 61 (163)
+..+++-..+|..-|...++.|-+.|.+.|.++...
T Consensus 12 l~~~~~d~~~~~kd~~~~~~~lk~Klq~ar~~i~~l 47 (83)
T PF07544_consen 12 LHQISKDPPLSSKDLDTATGSLKHKLQKARAAIREL 47 (83)
T ss_pred HHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 334445488999999999999999999999999875
No 22
>PF03511 Fanconi_A: Fanconi anaemia group A protein; InterPro: IPR003516 Fanconi anaemia (FA) [, , ] is a recessive inherited disease characterised by defective DNA repair. FA cells are sensitive to DNA cross-linking agents that cause chromosomal instability and cell death. The disease is manifested clinically by progressive pancytopenia, variable physical anomalies, and predisposition to malignancy []. Four complementation groups have been identified, designated A to D. The FA group A gene (FAA) has been cloned [], but its function remains to be elucidated.
Probab=20.78 E-value=91 Score=22.20 Aligned_cols=23 Identities=26% Similarity=0.473 Sum_probs=19.4
Q ss_pred HHHHHhHHHHHHHHHHHhhhccCC
Q 036431 97 KEFLSMVDRVCADISRNLQKKNGT 120 (163)
Q Consensus 97 RDFL~mLD~vCkEv~~~~q~~~~~ 120 (163)
.|++..| .+|.||-+-.++|++.
T Consensus 27 ~d~~kal-diCaeIL~cLE~R~is 49 (64)
T PF03511_consen 27 ADSLKAL-DICAEILGCLEKRKIS 49 (64)
T ss_pred cccHHHH-HHHHHHHHHHHhCCCc
Confidence 4788888 5999999999999764
No 23
>COG4903 ComK Genetic competence transcription factor [Transcription]
Probab=20.10 E-value=69 Score=26.95 Aligned_cols=28 Identities=14% Similarity=0.373 Sum_probs=23.5
Q ss_pred cCCceeehhHHHHHHhHHHHHHHHHHHhhhccCCC
Q 036431 87 EHPLQLFVIVKEFLSMVDRVCADISRNLQKKNGTT 121 (163)
Q Consensus 87 ~~plriFvIVRDFL~mLD~vCkEv~~~~q~~~~~~ 121 (163)
+.||++|+ ++||-||=+|-..-.|++++
T Consensus 38 ~c~F~v~~-------ii~rsc~f~g~Sy~GrKagT 65 (190)
T COG4903 38 QCPFKVQK-------IIERSCKFYGNSYLGRKAGT 65 (190)
T ss_pred ccchhhhH-------HHHhhhhhhcchhhcccccc
Confidence 89999999 67999999987666777776
Done!