Query psy14094
Match_columns 149
No_of_seqs 113 out of 1072
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 19:23:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14094.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14094hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01217 Clat_adaptor_s: Clath 100.0 3.3E-42 7E-47 251.7 17.8 141 7-147 1-141 (141)
2 COG5030 APS2 Clathrin adaptor 100.0 1.3E-37 2.8E-42 223.1 14.3 141 7-147 1-141 (152)
3 KOG0934|consensus 100.0 2E-36 4.4E-41 216.5 8.1 142 7-148 1-142 (145)
4 KOG0936|consensus 100.0 3.8E-35 8.3E-40 213.4 14.1 143 7-149 1-149 (182)
5 KOG0935|consensus 100.0 3.7E-34 8.1E-39 200.9 11.4 142 7-148 1-143 (143)
6 KOG0938|consensus 100.0 1.3E-31 2.7E-36 216.6 12.8 134 7-144 1-135 (446)
7 KOG3343|consensus 100.0 4.2E-30 9.1E-35 188.1 12.7 139 3-144 4-146 (175)
8 KOG0937|consensus 99.9 1.2E-26 2.7E-31 192.9 14.0 134 8-144 1-136 (424)
9 KOG2740|consensus 99.9 2.3E-24 4.9E-29 175.6 8.9 135 7-142 1-136 (418)
10 COG5541 RET3 Vesicle coat comp 99.9 2.4E-21 5.1E-26 141.9 8.8 140 1-143 1-152 (187)
11 KOG2635|consensus 99.5 4.4E-13 9.4E-18 112.2 11.4 135 6-142 1-135 (512)
12 PF03164 Mon1: Trafficking pro 97.1 0.011 2.3E-07 50.5 11.6 89 9-101 12-103 (415)
13 PF15001 AP-5_subunit_s1: AP-5 97.0 0.059 1.3E-06 41.4 14.1 81 59-139 102-183 (189)
14 PF08923 MAPKK1_Int: Mitogen-a 95.7 0.21 4.6E-06 35.5 9.5 94 6-99 15-114 (119)
15 PF04099 Sybindin: Sybindin-li 95.0 0.33 7.2E-06 35.4 9.1 95 8-103 1-118 (142)
16 PF13774 Longin: Regulated-SNA 94.5 0.75 1.6E-05 30.0 9.0 49 54-102 17-65 (83)
17 KOG0997|consensus 92.8 1.5 3.1E-05 38.4 10.0 80 9-92 118-200 (523)
18 COG5122 TRS23 Transport protei 91.9 1.3 2.9E-05 31.4 7.3 94 6-102 1-107 (134)
19 KOG0859|consensus 91.5 5.4 0.00012 31.0 11.5 90 11-103 4-93 (217)
20 KOG0862|consensus 88.0 11 0.00025 29.5 11.0 87 16-103 11-101 (216)
21 KOG3368|consensus 84.2 11 0.00024 27.5 7.9 93 6-101 1-109 (140)
22 KOG0781|consensus 81.3 39 0.00084 30.0 11.6 112 7-122 1-116 (587)
23 PF08006 DUF1700: Protein of u 81.0 5 0.00011 30.0 5.6 53 93-145 6-64 (181)
24 KOG3369|consensus 69.5 49 0.0011 25.4 9.8 45 55-101 125-170 (199)
25 PF04086 SRP-alpha_N: Signal r 66.1 38 0.00083 26.9 7.5 50 54-103 20-71 (279)
26 cd01903 Ntn_AC_NAAA AC_NAAA Th 49.8 16 0.00034 28.6 2.6 29 1-29 3-31 (231)
27 PF03259 Robl_LC7: Roadblock/L 49.3 66 0.0014 20.3 6.5 19 5-23 12-30 (91)
28 PF08217 DUF1712: Fungal domai 46.1 2.3E+02 0.0049 25.7 9.6 71 52-124 57-135 (604)
29 COG3322 Predicted periplasmic 45.0 19 0.00042 29.6 2.5 23 7-29 103-125 (295)
30 PF01535 PPR: PPR repeat; Int 44.9 21 0.00046 17.6 1.9 18 111-128 14-31 (31)
31 PF05228 CHASE4: CHASE4 domain 41.2 1.2E+02 0.0027 21.2 6.8 23 7-29 49-73 (161)
32 PF14903 WG_beta_rep: WG conta 39.9 33 0.00071 17.8 2.2 17 13-29 3-19 (35)
33 PF02268 TFIIA_gamma_N: Transc 39.5 51 0.0011 19.7 3.1 15 116-130 15-29 (49)
34 PF13812 PPR_3: Pentatricopept 39.0 29 0.00063 17.5 1.9 18 111-128 15-32 (34)
35 PF15047 DUF4533: Protein of u 38.7 56 0.0012 25.8 4.1 38 86-123 19-63 (225)
36 cd08324 CARD_NOD1_CARD4 Caspas 37.3 21 0.00046 23.9 1.3 42 106-147 7-48 (85)
37 PF09201 SRX: SRX; InterPro: 37.1 1.7E+02 0.0037 21.6 7.5 73 7-79 1-86 (148)
38 PF08784 RPA_C: Replication pr 35.2 41 0.00089 22.5 2.6 21 112-132 78-98 (102)
39 KOG4281|consensus 35.1 43 0.00092 26.5 2.9 40 89-128 3-44 (236)
40 PRK13599 putative peroxiredoxi 34.7 79 0.0017 24.4 4.4 33 7-39 118-150 (215)
41 PRK13190 putative peroxiredoxi 33.6 82 0.0018 23.9 4.3 33 8-40 117-149 (202)
42 KOG1766|consensus 32.4 75 0.0016 21.9 3.4 41 86-126 25-67 (104)
43 cd03016 PRX_1cys Peroxiredoxin 32.4 1E+02 0.0022 23.3 4.7 21 9-29 118-138 (203)
44 COG0450 AhpC Peroxiredoxin [Po 32.3 91 0.002 24.1 4.3 32 7-38 123-154 (194)
45 KOG0861|consensus 32.0 2.4E+02 0.0051 21.7 11.1 90 7-96 2-100 (198)
46 PF09639 YjcQ: YjcQ protein; 31.8 95 0.0021 20.5 3.9 35 96-130 7-41 (88)
47 PRK13191 putative peroxiredoxi 30.5 1E+02 0.0022 23.7 4.4 34 8-41 124-157 (215)
48 smart00571 DDT domain in diffe 29.8 46 0.001 20.6 2.0 17 81-97 5-21 (63)
49 TIGR00756 PPR pentatricopeptid 29.2 54 0.0012 16.2 2.0 20 111-130 14-33 (35)
50 PF13867 SAP30_Sin3_bdg: Sin3 28.8 78 0.0017 18.9 2.8 23 92-114 25-49 (53)
51 PF02334 RTP: Replication term 28.3 1.2E+02 0.0025 21.6 3.9 34 93-129 37-70 (122)
52 PRK15360 pathogenicity island 27.5 2.5E+02 0.0054 20.5 6.7 43 54-96 29-75 (137)
53 PF13041 PPR_2: PPR repeat fam 27.4 56 0.0012 18.5 1.9 22 111-132 17-38 (50)
54 cd03015 PRX_Typ2cys Peroxiredo 27.4 1.4E+02 0.0031 21.6 4.6 18 8-25 120-137 (173)
55 PRK13189 peroxiredoxin; Provis 26.5 1.4E+02 0.003 23.1 4.5 23 7-29 125-147 (222)
56 PF04614 Pex19: Pex19 protein 26.2 1.6E+02 0.0035 23.3 4.9 17 86-102 141-157 (248)
57 PF02791 DDT: DDT domain; Int 25.1 69 0.0015 19.5 2.1 17 82-98 6-22 (61)
58 PRK10382 alkyl hydroperoxide r 24.5 1.2E+02 0.0026 22.8 3.8 32 9-40 120-151 (187)
59 PRK10397 lipoprotein; Provisio 23.4 63 0.0014 23.4 1.9 21 10-30 54-74 (137)
60 PRK15000 peroxidase; Provision 23.2 1.8E+02 0.0039 22.0 4.6 34 7-40 124-157 (200)
61 KOG1373|consensus 23.0 1.2E+02 0.0027 26.2 3.8 52 85-136 123-183 (476)
62 TIGR03137 AhpC peroxiredoxin. 22.8 1.4E+02 0.0031 22.1 3.9 34 8-41 119-152 (187)
63 PF09561 RE_HpaII: HpaII restr 22.6 3.2E+02 0.007 23.1 6.2 56 8-73 292-347 (355)
64 PF05746 DALR_1: DALR anticodo 22.3 1.4E+02 0.003 20.0 3.5 46 81-126 56-106 (119)
65 cd08330 CARD_ASC_NALP1 Caspase 22.3 47 0.001 21.7 1.0 41 107-147 8-48 (82)
66 COG1443 Idi Isopentenyldiphosp 21.9 62 0.0014 24.8 1.7 18 8-25 35-52 (185)
67 cd05165 PI3Kc_I Phosphoinositi 21.9 1.3E+02 0.0028 25.5 3.7 84 53-136 222-320 (366)
68 PRK08937 adenylosuccinate lyas 21.5 3.6E+02 0.0078 20.3 6.4 58 86-143 113-178 (216)
69 cd03671 Ap4A_hydrolase_plant_l 21.4 98 0.0021 21.8 2.6 20 9-28 6-25 (147)
70 PTZ00137 2-Cys peroxiredoxin; 20.7 1.9E+02 0.0042 23.2 4.4 33 8-40 188-220 (261)
71 PTZ00253 tryparedoxin peroxida 20.1 2.1E+02 0.0046 21.4 4.4 22 8-29 127-148 (199)
No 1
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=100.00 E-value=3.3e-42 Score=251.69 Aligned_cols=141 Identities=40% Similarity=0.680 Sum_probs=131.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLT 86 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~i 86 (149)
||+|++|+|++|+++++|||++.+.+++++++.++.+.+..++++.+|++.+++++++|+++++|||+++++.++||+++
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel~~ 80 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRDVSEEERQKLFEKFIKKKSSRNSKQSPIFEHDNYRIVYKRYSDLYFVVVGDENENELLL 80 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSSSSSTSEEEETTEEEEEEEETTEEEEEEESSTSBHHHH
T ss_pred CEEEEEEEcCCCCEEEehhcCCccHHHHHHHHHHHHHHHHhcccccceeeecccceeeeEeeccEEEEEEeecccchHHH
Confidence 89999999999999999999888887778888888888877777779999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhh
Q psy14094 87 LEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLL 147 (149)
Q Consensus 87 le~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~ 147 (149)
+++||+++++|+.|||+++|.++++||+.+|++|||++|+|+|++||++.|++|++++|++
T Consensus 81 ~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~~~~ 141 (141)
T PF01217_consen 81 LEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQDSA 141 (141)
T ss_dssp HHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHCCC-
T ss_pred HHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHhhcC
Confidence 9999999999999999999999999999999999999999999999999999999999863
No 2
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.3e-37 Score=223.07 Aligned_cols=141 Identities=52% Similarity=0.935 Sum_probs=136.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLT 86 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~i 86 (149)
||++++|+|++|+++|.|||.+.+.+++..+.+++++.+++|+++.+++++..+.++|||||++|||+++++.++|||++
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~~~~~e~~kli~~i~~lIs~R~~ke~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dnEl~i 80 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARKPKESNFIEGKNEKIVYRRYATLYFVFGVDNDDNELII 80 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCCchhcccccccCcEEEeeecCcEEEEEEEcCCCCcchH
Confidence 79999999999999999999999988888999999999999998899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhh
Q psy14094 87 LEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLL 147 (149)
Q Consensus 87 le~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~ 147 (149)
++.+|.|+++++.|||+|||.++++||.++|.+||||+.+|.++||+++.+.+++...++.
T Consensus 81 L~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~~v~~lda~ 141 (152)
T COG5030 81 LELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLEHVYALDAE 141 (152)
T ss_pred HHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999999999877654
No 3
>KOG0934|consensus
Probab=100.00 E-value=2e-36 Score=216.50 Aligned_cols=142 Identities=75% Similarity=1.194 Sum_probs=138.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLT 86 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~i 86 (149)
||+++++.+++|+++|+|||.+.+.++++..++++.+.+.+|++++|+++++++++.||||+++|||+++...++|||++
T Consensus 1 mi~f~LlvsrQGk~rL~k~y~~~~~~er~~i~re~i~~~Lar~pk~csfie~kd~kvVyrryasl~f~~~v~~~dNEL~~ 80 (145)
T KOG0934|consen 1 MIKFFLLVSRQGKTRLQKWYEALSIKERKKIERELIKSVLARKPKMCSFIEYKDEKVVYRRYASLFFCVGVEDNDNELAI 80 (145)
T ss_pred CeEEEEEEeccCceehhHHHhhhcHHHHHHHHHHHHHHHHhCCcccccchhccCceehhhhhhhEEEEEEEecCCchhhH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhhc
Q psy14094 87 LEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLLQ 148 (149)
Q Consensus 87 le~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~~ 148 (149)
+|++|+++++|++|||+|||.+|++||.++|.+|||.+-+|-.+||..+.....+.++|-++
T Consensus 81 LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~~~~~i~~ad~l~ 142 (145)
T KOG0934|consen 81 LEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKNDVLKAIAQADLLQ 142 (145)
T ss_pred HHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhcccHHHHHHHhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999988765
No 4
>KOG0936|consensus
Probab=100.00 E-value=3.8e-35 Score=213.40 Aligned_cols=143 Identities=36% Similarity=0.711 Sum_probs=137.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEe----C--CEEEEEEEeCcEEEEEEecCC
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEW----K--DVKIVYKRYASLYFCCAIEQN 80 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~----~--~~~~vy~~~~~Lyfv~v~~~~ 80 (149)
||+|++|+|++|+|+++|+|.+...+.|+.+.++.|..+++|++.+|++++. + +.+++||+|+.|||+.+.|+.
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p~~~~~Qq~lir~vf~lvs~R~~n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfvvD~s 80 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRPDNVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVVDSS 80 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCCchHhhhhccccccCCccceeehheeeeEEEEEEEcCC
Confidence 8999999999999999999999999889999999999999999888999863 3 789999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhhcC
Q psy14094 81 DNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLLQE 149 (149)
Q Consensus 81 ~n~l~ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~~~ 149 (149)
||||+++++++.|+++|+++|.++||.++++|+.+++.+|+|++.+|.++||+.+.|...+..|+|+.|
T Consensus 81 EsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nklek 149 (182)
T KOG0936|consen 81 ESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKLEK 149 (182)
T ss_pred cchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999988763
No 5
>KOG0935|consensus
Probab=100.00 E-value=3.7e-34 Score=200.91 Aligned_cols=142 Identities=46% Similarity=0.822 Sum_probs=130.6
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEE-EEEEEeCcEEEEEEecCCCCHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVK-IVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~-~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
||+++++.|++|+++++|||.+..++++.+.+.++++.+..|+++..++++..+.+ ..+|++++|||+.+++..+|+++
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd~K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDnela 80 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRDAKHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNELA 80 (143)
T ss_pred CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhccchhhhheeeeeceEEEEEeeCCEEEEEEEecCCchHH
Confidence 89999999999999999999988887788899999999999988865556555555 45559999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhhc
Q psy14094 86 TLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLLQ 148 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~~ 148 (149)
.++-+|.|+++|+.||+++||.++.+||.+||.++|||+-+|.++||+...+.+|+...++++
T Consensus 81 yLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vlerl~~L~~Le 143 (143)
T KOG0935|consen 81 YLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLERLLMLQSLE 143 (143)
T ss_pred HHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999999999999999999999999988874
No 6
>KOG0938|consensus
Probab=99.97 E-value=1.3e-31 Score=216.65 Aligned_cols=134 Identities=18% Similarity=0.257 Sum_probs=122.3
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHH-hhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITT-ILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~-~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
||+++||+|.+|+++++|.||++..+.. .++|+. +.+..+..||+..+++++|+|.++++||++++|.+|.|.++
T Consensus 1 misglfi~n~rGevlink~fr~dlkrs~----~diFRv~vi~n~d~r~PV~~igsttf~~~r~~nl~lvaitksN~Nva~ 76 (446)
T KOG0938|consen 1 MISGLFIYNLRGEVLINKTFRDDLKRSI----VDIFRVQVINNLDVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAA 76 (446)
T ss_pred CcceEEEEeccCcEEEehhhhhhhhhhH----HHHHHHhhhhccccCCCeeEecceeEEEEeeccEEEEEEecCCCchhh
Confidence 8999999999999999999998855443 334443 34445667999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQ 144 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~ 144 (149)
++|||..+++++++|||..+|+.|++||.++||+||||+|+||||+|+|+.++..|+++
T Consensus 77 v~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~~ 135 (446)
T KOG0938|consen 77 VFEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQK 135 (446)
T ss_pred HHHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999876
No 7
>KOG3343|consensus
Probab=99.97 E-value=4.2e-30 Score=188.12 Aligned_cols=139 Identities=22% Similarity=0.362 Sum_probs=127.5
Q ss_pred cccchhceeEEEeCCCCEEEEecCCCCC---hhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecC
Q psy14094 3 EYLLNMQFMLLFSRQGKLRLQKWYVAHP---DKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQ 79 (149)
Q Consensus 3 ~~~~mi~~i~iln~~G~~ll~k~y~~~~---~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~ 79 (149)
..++.+++++|+|++|+|+++|||.++. .++++++|+.+|+++.+ ++ +.|..++|...||+..-||+|+++++.
T Consensus 4 ~sly~vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~KT~k-t~--~eI~~ldg~~vvYk~~~Dl~fyv~G~~ 80 (175)
T KOG3343|consen 4 LSLYTVKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSKTSK-TE--SEILLLDGNTVVYKSVIDLHFYVVGSE 80 (175)
T ss_pred cchhhhheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhccccc-cc--ceeEEecCcEEEEEecccEEEEEecCc
Confidence 4578999999999999999999999864 46889999999988754 22 568999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHhcc-cCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHH
Q psy14094 80 NDNELLTLEIIHRYVELLDKYFGS-VCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQ 144 (149)
Q Consensus 80 ~~n~l~ile~L~~lv~~l~~yf~~-v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~ 144 (149)
+|||+++.+.|+++.+++...+++ +....+.+|++.+..++||++|+|+++||||+.|+.|+...
T Consensus 81 ~ENEl~L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~ 146 (175)
T KOG3343|consen 81 EENELMLMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALR 146 (175)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccC
Confidence 999999999999999999999975 78889999999999999999999999999999999998754
No 8
>KOG0937|consensus
Probab=99.94 E-value=1.2e-26 Score=192.92 Aligned_cols=134 Identities=16% Similarity=0.247 Sum_probs=119.2
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhc--cCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILA--RKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~--~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
++++|++|.+|+++++|.||++.+.... +.. +++... ..+..+|++.++|.+|+|.++++||++++++.|.|+..
T Consensus 1 ~sa~fild~~G~~lisr~yr~dv~~s~~--~~F-~~~l~~~e~~~~~~p~l~~~g~~~~~ik~s~lylv~~~~~n~~a~~ 77 (424)
T KOG0937|consen 1 ASAVFILDHKGEVLISRDYRGDVPMSST--EKF-FRKLFEKEEGDESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAAL 77 (424)
T ss_pred CceEEEEcCCCcEeEeecccccCChhhh--hhH-HHHHhhhcccCCCCCeEEeCCceEEEEeecceEEEEEeccCCCHHH
Confidence 4799999999999999999998764442 222 223222 23446899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQ 144 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~ 144 (149)
+++||+++++++.+||+.+.|..+++||+++||+|||++|+||||+|++++++++|+++
T Consensus 78 v~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~ 136 (424)
T KOG0937|consen 78 VLSFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQK 136 (424)
T ss_pred HHHHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhccc
Confidence 99999999999999999999999999999999999999999999999999999999876
No 9
>KOG2740|consensus
Probab=99.91 E-value=2.3e-24 Score=175.59 Aligned_cols=135 Identities=20% Similarity=0.230 Sum_probs=115.5
Q ss_pred hhceeEEEeCCCCEEEEecCCC-CChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVA-HPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~-~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
|+.++|+.|.+|+.+++|.+++ ...+..++.+.+.+..- .+.++.+|++....+.+.-.-+.++||++++..+..||+
T Consensus 1 mi~siflidtsg~l~lek~~~g~t~~rsic~~f~e~~~~~-~~~e~~ppvi~~p~hylfsv~~~~i~~~~~st~e~pPL~ 79 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGSTVVRSICDYFFEDQSSD-DDLEHVPPVISTPHHYLFSVYRDLIFFCAVSTVETPPLM 79 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeeehHHHHHHhhhhc-cccccCCceecCCceeeeeeeccCcEEEEEEeccCCChh
Confidence 7899999999999999999995 34455444444433331 234556788877777777777888999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIA 142 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~ 142 (149)
+.+|||++++++.+|||.++|..|.+|++.|||+||||+|+|+|..|||++|++.|+
T Consensus 80 ~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~NiLke~i~ 136 (418)
T KOG2740|consen 80 VIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEPNILKELIP 136 (418)
T ss_pred HHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccChhHHHhhcC
Confidence 999999999999999999999999999999999999999999999999999999875
No 10
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.85 E-value=2.4e-21 Score=141.89 Aligned_cols=140 Identities=18% Similarity=0.249 Sum_probs=124.5
Q ss_pred CccccchhceeEEEeCCCCEEEEecCCCCCh-----------hhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeC
Q psy14094 1 MYEYLLNMQFMLLFSRQGKLRLQKWYVAHPD-----------KLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYA 69 (149)
Q Consensus 1 ~~~~~~mi~~i~iln~~G~~ll~k~y~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~ 69 (149)
|.-.++.+.|++|+|++|++++.|||.+++. ++++++++.++++..+. +.+|+.+.+...+|+++.
T Consensus 1 MnlsLy~v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~k~---~~~Il~f~d~lV~~k~~~ 77 (187)
T COG5541 1 MNLSLYDVEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTAKD---RESILMFYDRLVMCKRLD 77 (187)
T ss_pred CCcchheeeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhhcC---ccceeeEcceeeeeeeeh
Confidence 4445778999999999999999999998643 35667888888876432 246899999999999999
Q ss_pred cEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhccc-CHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHH
Q psy14094 70 SLYFCCAIEQNDNELLTLEIIHRYVELLDKYFGSV-CELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAA 143 (149)
Q Consensus 70 ~Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf~~v-~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~ 143 (149)
|+.++.++.-++||.++.+.+..+..+|...++.. ++..+.+|++.+..++||.+|+|.+++|+++.|++|++.
T Consensus 78 dv~~yiv~~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K 152 (187)
T COG5541 78 DVLLYIVSPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPK 152 (187)
T ss_pred hEEEEEecccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCC
Confidence 99999999999999999999999999999999986 566799999999999999999999999999999999975
No 11
>KOG2635|consensus
Probab=99.47 E-value=4.4e-13 Score=112.21 Aligned_cols=135 Identities=17% Similarity=0.245 Sum_probs=121.8
Q ss_pred chhceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 6 LNMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 6 ~mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
|++-+.-+.+.+|+.+++|.|++++..+...+...|.+.+. ..+++.+++-++++|||++..++|++.+|..+.|.|-
T Consensus 1 Mvvlaa~i~t~~Gk~ivsRqf~~Msr~RIEgLl~aFpkLv~--~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIle 78 (512)
T KOG2635|consen 1 MVVLAASINTKTGKAIVSRQFREMSRSRIEGLLAAFPKLVS--AGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILE 78 (512)
T ss_pred CeEEEEEEeecCCceeeehHhHhhhHHHHHHHHHHhHHhhc--cCCCccEEecccEEEEEEecccEEEEEEeccccchhh
Confidence 45667889999999999999998877777777788776654 2456789999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIA 142 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~ 142 (149)
.++.|+.|..+...|+..++|+.|.+|---+...+||++--||-...+-.+|+.+..
T Consensus 79 Dl~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~e 135 (512)
T KOG2635|consen 79 DLETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLE 135 (512)
T ss_pred HHHHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhc
Confidence 999999999999999999999999999888899999999999999999999988865
No 12
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=97.08 E-value=0.011 Score=50.54 Aligned_cols=89 Identities=10% Similarity=0.140 Sum_probs=60.2
Q ss_pred ceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhh---ccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 9 QFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTIL---ARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 9 ~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~---~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
+.+||+++-|||+.+|| ++. .....+..-+...++ ...+. ---+..+++++++..++-||++++++.+|++..
T Consensus 12 kh~fIlS~AGKPIysr~--G~e-~~l~~~~g~~~aiiS~~~~~~d~-l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~ 87 (415)
T PF03164_consen 12 KHFFILSSAGKPIYSRY--GDE-DKLSSLMGVIQAIISFFQSNGDE-LRSIRAGDHRIVFLNRGPLILVAVSKTGESESQ 87 (415)
T ss_pred CeEEEECCCCceeEEec--CCh-HHHHHHHHHHHHHHHHHHhCCCc-EEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHH
Confidence 67999999999999999 321 112222222222221 22222 123467999999999999999999999999888
Q ss_pred HHHHHHHHHHHHHHHh
Q psy14094 86 TLEIIHRYVELLDKYF 101 (149)
Q Consensus 86 ile~L~~lv~~l~~yf 101 (149)
+..-|+.+..-+-..+
T Consensus 88 l~~qL~~ly~qils~l 103 (415)
T PF03164_consen 88 LRKQLDYLYSQILSIL 103 (415)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 8777776665554444
No 13
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=97.02 E-value=0.059 Score=41.39 Aligned_cols=81 Identities=17% Similarity=0.279 Sum_probs=71.1
Q ss_pred CCEEEEEEEeCcEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhcccCH-HHHHhcHHHHHHHHHHHHhCcEeeecCHHHH
Q psy14094 59 KDVKIVYKRYASLYFCCAIEQNDNELLTLEIIHRYVELLDKYFGSVCE-LDIIFNFEKAYFILDELLLGGEIQETSKKNV 137 (149)
Q Consensus 59 ~~~~~vy~~~~~Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf~~v~E-~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i 137 (149)
+....+|....++-|..|++..||-++.-.+|+.++..+.++++.++. ..+...-+.|..+|+..+=.|--+--+.+.+
T Consensus 102 ~~k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~~l~~~~e~l~k~d~i~aiL~~fLP~GQLLFlN~~~~ 181 (189)
T PF15001_consen 102 TPKIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLKILSQPSEVLLKSDRILAILHRFLPHGQLLFLNHRFV 181 (189)
T ss_pred CCcEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHHHhCcHHHhhhhHHHHHHHHHHhCCCCcEEEEcHHHH
Confidence 456789999999999999999999999999999999999999977544 5677789999999999999998888887765
Q ss_pred HH
Q psy14094 138 LK 139 (149)
Q Consensus 138 ~~ 139 (149)
+.
T Consensus 182 k~ 183 (189)
T PF15001_consen 182 KQ 183 (189)
T ss_pred HH
Confidence 43
No 14
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=95.66 E-value=0.21 Score=35.54 Aligned_cols=94 Identities=15% Similarity=0.188 Sum_probs=62.0
Q ss_pred chhceeEEEeCCCCEEEEecCCCCChh-hHHHHHHHHHHHhh--cc--CCC-ccceeEeCCEEEEEEEeCcEEEEEEecC
Q psy14094 6 LNMQFMLLFSRQGKLRLQKWYVAHPDK-LKKKITRELITTIL--AR--KPK-MCSFLEWKDVKIVYKRYASLYFCCAIEQ 79 (149)
Q Consensus 6 ~mi~~i~iln~~G~~ll~k~y~~~~~~-~~~~~~~~~~~~~~--~~--~~~-~~pi~~~~~~~~vy~~~~~Lyfv~v~~~ 79 (149)
+-+.+++|-|++|=+++.=...+.... -+..+..-+-.... ++ -.+ ..-+..++++.+++.....+|+..++++
T Consensus 15 ~Gl~~I~itDrDGvpi~~v~~~~~~~~~~~~~~~~tf~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~~pl~it~ias~ 94 (119)
T PF08923_consen 15 DGLQAIVITDRDGVPIAKVSSDSAPESAMRPSLLSTFAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFIASS 94 (119)
T ss_dssp TTEEEEEEEETTS-EEEEEE-TTS-GGGGSHHHHCCHHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEEEET
T ss_pred CCeEEEEEECCCCcEEEEecCCCCcchhhhhHHHHHHHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEEecC
Confidence 357899999999999888555443221 11223322211111 11 011 2345578999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHH
Q psy14094 80 NDNELLTLEIIHRYVELLDK 99 (149)
Q Consensus 80 ~~n~l~ile~L~~lv~~l~~ 99 (149)
+.|--+++++-+.+...++.
T Consensus 95 ~aN~G~il~l~~~L~~~l~~ 114 (119)
T PF08923_consen 95 NANTGLILSLEEELAPILNE 114 (119)
T ss_dssp TS-HHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHhHHHHHHHHHH
Confidence 99999999998888887764
No 15
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses. Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.
Probab=95.03 E-value=0.33 Score=35.40 Aligned_cols=95 Identities=18% Similarity=0.231 Sum_probs=54.1
Q ss_pred hceeEEEeCCCCEEEEecCCCCC--------hhhHHHHHHHH------HHHhhccCC-----Ccc--ceeEeCCEEE-EE
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHP--------DKLKKKITREL------ITTILARKP-----KMC--SFLEWKDVKI-VY 65 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~--------~~~~~~~~~~~------~~~~~~~~~-----~~~--pi~~~~~~~~-vy 65 (149)
|.+++|+|+.|..+..|-|.... ..+...+..-+ .+++..... ..+ ..++.+.+++ .|
T Consensus 1 IyslyI~nr~G~lIy~~~~~~~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~ 80 (142)
T PF04099_consen 1 IYSLYIFNRSGGLIYYREWNRSKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCF 80 (142)
T ss_dssp EEEEEEE-TTS-EEEEEETSSSS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEE
T ss_pred CeEEEEEeCCcceeeehhhCCCCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEEEEE
Confidence 46799999999999999887532 12222222222 122222110 112 2345567764 67
Q ss_pred EEeCcEEEEEEecCCCCHHHHHHHHHHHHHHHHHHh-cc
Q psy14094 66 KRYASLYFCCAIEQNDNELLTLEIIHRYVELLDKYF-GS 103 (149)
Q Consensus 66 ~~~~~Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf-~~ 103 (149)
....++-|+++++.+...+ .-++++.+.++.-+|. ++
T Consensus 81 eT~TGlKFvl~td~~~~~~-~~~l~~~~~~lY~dyV~KN 118 (142)
T PF04099_consen 81 ETPTGLKFVLITDPNVPSL-RDELLRIYYELYVDYVVKN 118 (142)
T ss_dssp E-TTS-EEEEEE-TTCCHC-HHHHHHHHHHHHHHHHHS-
T ss_pred EcCcCcEEEEEecCCCccH-HHHHHHHHHHHHHHHHhhC
Confidence 7788999999999998643 5567888888888886 54
No 16
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=94.48 E-value=0.75 Score=29.96 Aligned_cols=49 Identities=8% Similarity=0.167 Sum_probs=43.4
Q ss_pred ceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhc
Q psy14094 54 SFLEWKDVKIVYKRYASLYFCCAIEQNDNELLTLEIIHRYVELLDKYFG 102 (149)
Q Consensus 54 pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf~ 102 (149)
-.++.+++.|-|...+++.++++++.+.+.-..+.||+.+.+-+..-++
T Consensus 17 ~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~ 65 (83)
T PF13774_consen 17 MSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYG 65 (83)
T ss_dssp EEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCT
T ss_pred EEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcC
Confidence 3567899999999999999999999999999999999999998888877
No 17
>KOG0997|consensus
Probab=92.77 E-value=1.5 Score=38.35 Aligned_cols=80 Identities=9% Similarity=0.044 Sum_probs=52.4
Q ss_pred ceeEEEeCCCCEEEEecCCCCCh---hhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHH
Q psy14094 9 QFMLLFSRQGKLRLQKWYVAHPD---KLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELL 85 (149)
Q Consensus 9 ~~i~iln~~G~~ll~k~y~~~~~---~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ 85 (149)
+.+||+.+-|+++++++=..... -......-.+++. +...--.+..+|+++++-+.+-|++++++..+.++-.
T Consensus 118 khifilseaGKPiyS~~gs~e~l~stmGv~~alISf~q~----~~~~i~si~a~g~k~vfl~kspl~LvA~s~t~~Sa~q 193 (523)
T KOG0997|consen 118 KHIFILSEAGKPIYSRHGSDEALSSTMGVMQALISFFQV----SGLAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAAQ 193 (523)
T ss_pred ceEEEEecCCCceeeecCcHHHHHHHHHHHHHHHHHHhh----CCceEEEEEecCceEEEEecCcEEEEEEcccccCHHH
Confidence 46999999999999998654321 1111112222222 1111223456889999999999999999998887766
Q ss_pred HHHHHHH
Q psy14094 86 TLEIIHR 92 (149)
Q Consensus 86 ile~L~~ 92 (149)
+..-|..
T Consensus 194 L~~qL~~ 200 (523)
T KOG0997|consen 194 LLQQLLL 200 (523)
T ss_pred HHHHHHH
Confidence 5554443
No 18
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=91.93 E-value=1.3 Score=31.38 Aligned_cols=94 Identities=11% Similarity=0.240 Sum_probs=57.0
Q ss_pred chhceeEEEeCCCCEEEEecCCCCCh-hhHHH------HHHHHHHHhhccCC--Ccc--ceeEeCCE-EEEEEEeCcEEE
Q psy14094 6 LNMQFMLLFSRQGKLRLQKWYVAHPD-KLKKK------ITRELITTILARKP--KMC--SFLEWKDV-KIVYKRYASLYF 73 (149)
Q Consensus 6 ~mi~~i~iln~~G~~ll~k~y~~~~~-~~~~~------~~~~~~~~~~~~~~--~~~--pi~~~~~~-~~vy~~~~~Lyf 73 (149)
|.+.+++|+|+.|-.++.|-|..... -...+ ....++.....-.+ ..+ -++..+.. -.+|+...++-|
T Consensus 1 mave~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~~gssg~~~l~~~~f~m~I~qT~TG~kF 80 (134)
T COG5122 1 MAVEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTGTKF 80 (134)
T ss_pred CceeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccCCCCCceEEEEeccEEEEEEEecCCcEE
Confidence 35678999999999999999954321 11100 01111111100001 112 23455654 479999999999
Q ss_pred EEEe-cCCCCHHHHHHHHHHHHHHHHHHhc
Q psy14094 74 CCAI-EQNDNELLTLEIIHRYVELLDKYFG 102 (149)
Q Consensus 74 v~v~-~~~~n~l~ile~L~~lv~~l~~yf~ 102 (149)
|+++ +...|.+.- |+++++...+|.-
T Consensus 81 V~~~~k~t~na~~q---l~kiY~lYsdYV~ 107 (134)
T COG5122 81 VFVAEKRTVNALFQ---LQKIYSLYSDYVT 107 (134)
T ss_pred EEEecCCchhHHHH---HHHHHHHHHHHhh
Confidence 9999 555665544 7788888888873
No 19
>KOG0859|consensus
Probab=91.54 E-value=5.4 Score=31.02 Aligned_cols=90 Identities=12% Similarity=0.231 Sum_probs=63.4
Q ss_pred eEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHHHHHH
Q psy14094 11 MLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLTLEII 90 (149)
Q Consensus 11 i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ile~L 90 (149)
++=+=.+|-++|+++=.-... -...-+.+.++++..++ ..--..+|++.|-|.+-+++.++++++.+..--.-+.||
T Consensus 4 iYs~VARGTvvLaeft~~~gN--f~sva~qiL~klp~~~n-~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFL 80 (217)
T KOG0859|consen 4 IYSFVARGTVILAEFTEFSGN--FSSIAAQILQKLPSSSN-SKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFL 80 (217)
T ss_pred eEEEEecceEEEEeeeeccCC--HHHHHHHHHHhCCCCCC-CceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHH
Confidence 344457999999997542221 11234466666655432 122456899999999999999999999998888888899
Q ss_pred HHHHHHHHHHhcc
Q psy14094 91 HRYVELLDKYFGS 103 (149)
Q Consensus 91 ~~lv~~l~~yf~~ 103 (149)
.++-+-+.+=+|.
T Consensus 81 e~Ik~~F~k~YG~ 93 (217)
T KOG0859|consen 81 ERIKEDFKKRYGG 93 (217)
T ss_pred HHHHHHHHHHhcc
Confidence 8887776666653
No 20
>KOG0862|consensus
Probab=87.98 E-value=11 Score=29.51 Aligned_cols=87 Identities=13% Similarity=0.182 Sum_probs=62.3
Q ss_pred CCCCEEEEec---CCCC-ChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEEEEEecCCCCHHHHHHHHH
Q psy14094 16 RQGKLRLQKW---YVAH-PDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLTLEIIH 91 (149)
Q Consensus 16 ~~G~~ll~k~---y~~~-~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~n~l~ile~L~ 91 (149)
.+|-|+-+-. .++. +..+-++-.+.+++++...++..|+ ++.|++.|-|.-.+++.+.+.++.+.+--+.+.+|+
T Consensus 11 ~DGLPLa~s~d~~e~~~~s~~e~r~q~K~L~kkLs~~s~~r~S-ietg~f~fHfli~~~Vcylvicd~~yP~kLAF~YLe 89 (216)
T KOG0862|consen 11 RDGLPLAASTDDNEQSGDSLLEYRQQAKSLFKKLSQQSPTRCS-IETGPFVFHFLIESGVCYLVICDKSYPRKLAFSYLE 89 (216)
T ss_pred cCCcccccccCcccCCCchHHHHHHHHHHHHHhccCCCCcccc-cccCCeEEEEEecCCEEEEEEecCCCcHHHHHHHHH
Confidence 4666665442 1121 2133444456667666543333333 456889999999999999999999999999999999
Q ss_pred HHHHHHHHHhcc
Q psy14094 92 RYVELLDKYFGS 103 (149)
Q Consensus 92 ~lv~~l~~yf~~ 103 (149)
.+.+-+.+-+++
T Consensus 90 dL~~EF~~~~~~ 101 (216)
T KOG0862|consen 90 DLAQEFDKSYGK 101 (216)
T ss_pred HHHHHHHHhccc
Confidence 999999998875
No 21
>KOG3368|consensus
Probab=84.24 E-value=11 Score=27.45 Aligned_cols=93 Identities=13% Similarity=0.273 Sum_probs=54.1
Q ss_pred chhceeEEEeCCCCEEEEecCC-CC---ChhhH-HHHH-------HHHHHHhhccCCCccceeEe--CCEEEE-EEEeCc
Q psy14094 6 LNMQFMLLFSRQGKLRLQKWYV-AH---PDKLK-KKIT-------RELITTILARKPKMCSFLEW--KDVKIV-YKRYAS 70 (149)
Q Consensus 6 ~mi~~i~iln~~G~~ll~k~y~-~~---~~~~~-~~~~-------~~~~~~~~~~~~~~~pi~~~--~~~~~v-y~~~~~ 70 (149)
|.|-+++|.|+.|..++.+-|. .. .+++. ..+. +.+..++...+. ...|..+ +.++.- |-.-.+
T Consensus 1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d~-k~~f~sy~Ts~YklhfyeTptg 79 (140)
T KOG3368|consen 1 MTIYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGDV-KDGFLSYKTSKYKLHFYETPTG 79 (140)
T ss_pred CeEEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCCc-ccCeeEEeeceeEEEEEEcCCC
Confidence 4678899999999999988664 32 12111 1111 222233322211 1234433 444443 344568
Q ss_pred EEEEEEecCCCCHHHHHHHHHHHHH-HHHHHh
Q psy14094 71 LYFCCAIEQNDNELLTLEIIHRYVE-LLDKYF 101 (149)
Q Consensus 71 Lyfv~v~~~~~n~l~ile~L~~lv~-~l~~yf 101 (149)
|.|+..|+.+... +-++||.++. +--+|.
T Consensus 80 lk~vl~Tdpk~~~--ir~vLq~IYs~lyVE~V 109 (140)
T KOG3368|consen 80 LKFVLNTDPKAGS--IRDVLQYIYSHLYVEYV 109 (140)
T ss_pred cEEEEecCCCccc--HHHHHHHHHHHHHHHHH
Confidence 9999999988755 4678888888 444444
No 22
>KOG0781|consensus
Probab=81.28 E-value=39 Score=30.04 Aligned_cols=112 Identities=13% Similarity=0.179 Sum_probs=70.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhh-HHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCc--EEEEEEecCCCCH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKL-KKKITRELITTILARKPKMCSFLEWKDVKIVYKRYAS--LYFCCAIEQNDNE 83 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~-~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~--Lyfv~v~~~~~n~ 83 (149)
|+..+.|+++.|-++-...=-+....+ ...+++..+. ..|.. ..+ +.++.+++=|...++ +.|+++-..--+-
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll--~er~~-~~~-~~~~~yTlk~q~~N~~~lvfvvvfqki~~L 76 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLL--SERGG-VNS-FTFEAYTLKYQLDNQYSLVFVVVFQKILTL 76 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhccchHHHHHHHHHH--HhhcC-ccc-CchhheeEeeeecCCccEEEEEEEeccchh
Confidence 788899999999887655433333232 2233333221 12222 222 677888888888775 6677776666666
Q ss_pred HHHHHHHHHHHHHHHHHhcccCHHHHHhc-HHHHHHHHHH
Q psy14094 84 LLTLEIIHRYVELLDKYFGSVCELDIIFN-FEKAYFILDE 122 (149)
Q Consensus 84 l~ile~L~~lv~~l~~yf~~v~E~~i~~N-f~~v~~llDE 122 (149)
..+-.+|....+.+..-|...+-..++-| ++...+++++
T Consensus 77 ~yv~~ll~~v~~~f~e~~~~~~~~~l~~n~~~~~~e~lk~ 116 (587)
T KOG0781|consen 77 TYVDKLLNDVLNLFREKYDTQSALSLLNNTFDFQEELLKL 116 (587)
T ss_pred hhHHHHHHHHHHHHHHHhccchHHHhhhhhHHHHHHHHHH
Confidence 66667777777777777776666667666 4456666654
No 23
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=81.04 E-value=5 Score=30.00 Aligned_cols=53 Identities=23% Similarity=0.215 Sum_probs=40.7
Q ss_pred HHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEeeec------CHHHHHHHHHHHh
Q psy14094 93 YVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQET------SKKNVLKAIAAQD 145 (149)
Q Consensus 93 lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~~T------d~~~i~~~i~~~~ 145 (149)
+-+.|+++++.+.+++..+...-.-|.+||-...|...+- +|+.+++.+....
T Consensus 6 fL~~L~~~L~~lp~~e~~e~l~~Y~e~f~d~~~~G~sEeeii~~LG~P~~iA~~i~~~~ 64 (181)
T PF08006_consen 6 FLNELEKYLKKLPEEEREEILEYYEEYFDDAGEEGKSEEEIIAELGSPKEIAREILAEY 64 (181)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHcCCHHHHHHHHHHhh
Confidence 4456777888899999988888888888888888865544 7888877776543
No 24
>KOG3369|consensus
Probab=69.47 E-value=49 Score=25.36 Aligned_cols=45 Identities=16% Similarity=0.249 Sum_probs=36.4
Q ss_pred eeEeCCEE-EEEEEeCcEEEEEEecCCCCHHHHHHHHHHHHHHHHHHh
Q psy14094 55 FLEWKDVK-IVYKRYASLYFCCAIEQNDNELLTLEIIHRYVELLDKYF 101 (149)
Q Consensus 55 i~~~~~~~-~vy~~~~~Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf 101 (149)
+++.+..+ ++|+...++=|++++++.. -.+-.+|.+++++-.+|.
T Consensus 125 ~LetdtF~l~~~QTlTG~KFVvis~~~~--~~aD~lLrKiYelYsDyv 170 (199)
T KOG3369|consen 125 VLETDTFTLHIFQTLTGTKFVVIAEPGT--QGADSLLRKIYELYSDYV 170 (199)
T ss_pred EEEeccEEEEEEEccCCcEEEEEecCCc--hhHHHHHHHHHHHHHHHh
Confidence 45556654 6999999999999998777 456778999999999886
No 25
>PF04086 SRP-alpha_N: Signal recognition particle, alpha subunit, N-terminal; InterPro: IPR007222 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents the alpha subunit of the SR receptor.; GO: 0003924 GTPase activity, 0005047 signal recognition particle binding, 0005525 GTP binding, 0006184 GTP catabolic process, 0006886 intracellular protein transport, 0005785 signal recognition particle receptor complex; PDB: 2FH5_A 2GO5_1.
Probab=66.14 E-value=38 Score=26.92 Aligned_cols=50 Identities=8% Similarity=0.104 Sum_probs=32.9
Q ss_pred ceeEeCCEEEEEEEeCc--EEEEEEecCCCCHHHHHHHHHHHHHHHHHHhcc
Q psy14094 54 SFLEWKDVKIVYKRYAS--LYFCCAIEQNDNELLTLEIIHRYVELLDKYFGS 103 (149)
Q Consensus 54 pi~~~~~~~~vy~~~~~--Lyfv~v~~~~~n~l~ile~L~~lv~~l~~yf~~ 103 (149)
+-+.++++++=|.-.++ |.||+|-..=-.-..+-+||..+...|...|+.
T Consensus 20 ~~~~~d~y~lkw~~~Ne~~LvfVvvYq~il~l~yvd~LL~~v~~~F~~~y~~ 71 (279)
T PF04086_consen 20 SSFTYDNYTLKWTLDNELGLVFVVVYQKILQLTYVDKLLDDVKKEFVKLYKN 71 (279)
T ss_dssp --------EEEEEEETTTTEEEEEEES-GGGHHHHHHHHHHHHHHHHHHTHH
T ss_pred CceeEcCEEEEEEEeccCCEEEeeeecccccchHHHHHHHHHHHHHHHHHhH
Confidence 45789999999999885 899999887777777777777777777777765
No 26
>cd01903 Ntn_AC_NAAA AC_NAAA This conserved domain includes two closely related proteins, acid ceramidase (AC, also known as N-acylsphingosine amidohydrolase), and N-acylethanolamine-hydrolyzing acid amidase (NAAA). AC catalyzes the hydrolysis of ceramide to sphingosine and fatty acid. Ceramide is required for the biosynthesis of most sphingolipids and plays an important role in many signal transduction pathways by inducing apoptosis and/or arresting cell growth. An inherited deficiency of AC activity leads to the lysosomal storage disorder known as Farber disease. AC is considered a "rheostat" important for maintaining the proper intracellular levels of these lipids since hydrolysis of ceramide is the only source of sphingosine in cells. NAAA is a eukaryotic glycoprotein that hydrolyzes bioactive N-acylethanolamines, including anandamide (an endocannabinoid) and N-palmitoylethanolamine (an anti-inflammatory and neuroprotective substance), to fatty acids and ethanolamine at acidic pH
Probab=49.75 E-value=16 Score=28.63 Aligned_cols=29 Identities=10% Similarity=0.069 Sum_probs=25.4
Q ss_pred CccccchhceeEEEeCCCCEEEEecCCCC
Q psy14094 1 MYEYLLNMQFMLLFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 1 ~~~~~~mi~~i~iln~~G~~ll~k~y~~~ 29 (149)
+||+.+.++++.+.+++|++++.|.|+=.
T Consensus 3 ~ye~~~~CTS~~a~~~~G~~~~gRN~D~~ 31 (231)
T cd01903 3 FYEIFTFCTSIVAQDSNGTIYHARNLDFG 31 (231)
T ss_pred hhhhhccCceEEEECCCCCEEEEeccCCC
Confidence 57878889999999999999999999843
No 27
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=49.26 E-value=66 Score=20.34 Aligned_cols=19 Identities=11% Similarity=0.177 Sum_probs=16.8
Q ss_pred cchhceeEEEeCCCCEEEE
Q psy14094 5 LLNMQFMLLFSRQGKLRLQ 23 (149)
Q Consensus 5 ~~mi~~i~iln~~G~~ll~ 23 (149)
.+-+++..++|++|.++-+
T Consensus 12 ~~gv~~~~l~~~dG~~i~~ 30 (91)
T PF03259_consen 12 VPGVRGAVLVDKDGLVIAS 30 (91)
T ss_dssp STTEEEEEEEETTSEEEEE
T ss_pred CCCeeEEEEEcCCCCEEEE
Confidence 4567899999999999998
No 28
>PF08217 DUF1712: Fungal domain of unknown function (DUF1712); InterPro: IPR013176 The function of this fungal family of proteins is unknown.
Probab=46.09 E-value=2.3e+02 Score=25.72 Aligned_cols=71 Identities=15% Similarity=0.299 Sum_probs=47.4
Q ss_pred ccceeEeCCEE-EEEEEeCcEEEEEEec-------CCCCHHHHHHHHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHH
Q psy14094 52 MCSFLEWKDVK-IVYKRYASLYFCCAIE-------QNDNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEL 123 (149)
Q Consensus 52 ~~pi~~~~~~~-~vy~~~~~Lyfv~v~~-------~~~n~l~ile~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~ 123 (149)
.|.+++.+..+ +++....+.|++++.+ .+..+-.+...|.+.++.+..++|.++..- ++.......|++-
T Consensus 57 ~~~~I~T~K~r~v~~e~Ep~~Wi~l~I~~~~~~~~~~~~~~~L~~~L~~~Y~~F~L~hGsfs~~l--~~r~~L~~~L~~F 134 (604)
T PF08217_consen 57 PCDSIHTEKSRIVFYEPEPGFWIVLSINLPKEQSTKDGPEQYLLSVLKQAYSMFRLFHGSFSSLL--EGREKLKDRLEDF 134 (604)
T ss_pred cccceeecceEEEEEEecCCEEEEEEEecCcCCccccchHHHHHHHHHHHHHHHHHHcCCHHHhc--ccHHHHHHHHHHH
Confidence 46667665555 5666678999999887 223444689999999999999999754331 1444445555444
Q ss_pred H
Q psy14094 124 L 124 (149)
Q Consensus 124 i 124 (149)
.
T Consensus 135 ~ 135 (604)
T PF08217_consen 135 F 135 (604)
T ss_pred H
Confidence 3
No 29
>COG3322 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=44.97 E-value=19 Score=29.55 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=20.1
Q ss_pred hhceeEEEeCCCCEEEEecCCCC
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~ 29 (149)
-+..+|++|.+|+++++|.++..
T Consensus 103 g~d~vf~vd~~G~~vy~~~~d~~ 125 (295)
T COG3322 103 GLDGVFVVDPSGKLVYSKLVDQE 125 (295)
T ss_pred CccEEEEECCCCCEEEEeeeccc
Confidence 45689999999999999999764
No 30
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=44.86 E-value=21 Score=17.60 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=14.9
Q ss_pred hcHHHHHHHHHHHHhCcE
Q psy14094 111 FNFEKAYFILDELLLGGE 128 (149)
Q Consensus 111 ~Nf~~v~~llDE~id~G~ 128 (149)
.+++.+..+++||.+.|+
T Consensus 14 ~~~~~a~~~~~~M~~~g~ 31 (31)
T PF01535_consen 14 GQFEEALEVFDEMRERGI 31 (31)
T ss_pred chHHHHHHHHHHHhHCcC
Confidence 457888999999998884
No 31
>PF05228 CHASE4: CHASE4 domain; InterPro: IPR007892 CHASE4 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in prokaryotes. Specifically, CHASE4 domains are found in histidine kinases in archaea and in predicted diguanylate cyclases/phosphodiesterases in bacteria. Environmental factors that are recognised by CHASE4 domains are not known at this time [].
Probab=41.23 E-value=1.2e+02 Score=21.23 Aligned_cols=23 Identities=13% Similarity=0.395 Sum_probs=18.6
Q ss_pred hhceeEEEeCCCCEEE--EecCCCC
Q psy14094 7 NMQFMLLFSRQGKLRL--QKWYVAH 29 (149)
Q Consensus 7 mi~~i~iln~~G~~ll--~k~y~~~ 29 (149)
-+.+++++|.+|+++. ++.+...
T Consensus 49 ~~d~~~~~d~~g~~~~~~~~~~~~~ 73 (161)
T PF05228_consen 49 GLDLIFILDPDGRVLYSSSKGYDFE 73 (161)
T ss_pred CccEEEEEcCCCCEEEEeccCcccC
Confidence 4678999999999999 6666543
No 32
>PF14903 WG_beta_rep: WG containing repeat
Probab=39.92 E-value=33 Score=17.83 Aligned_cols=17 Identities=18% Similarity=0.329 Sum_probs=14.5
Q ss_pred EEeCCCCEEEEecCCCC
Q psy14094 13 LFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 13 iln~~G~~ll~k~y~~~ 29 (149)
++|.+|+.++...|+..
T Consensus 3 ~id~~G~~vi~~~yd~i 19 (35)
T PF14903_consen 3 YIDKNGKIVIPPKYDEI 19 (35)
T ss_pred EEeCCCCEEEEccccCc
Confidence 67999999999888764
No 33
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=39.47 E-value=51 Score=19.73 Aligned_cols=15 Identities=40% Similarity=0.452 Sum_probs=10.7
Q ss_pred HHHHHHHHHhCcEee
Q psy14094 116 AYFILDELLLGGEIQ 130 (149)
Q Consensus 116 v~~llDE~id~G~~~ 130 (149)
.-+.|||++..|.+.
T Consensus 15 L~dtLDeli~~~~I~ 29 (49)
T PF02268_consen 15 LTDTLDELIQEGKIT 29 (49)
T ss_dssp HHHHHHHHHHTTSS-
T ss_pred HHHHHHHHHHcCCCC
Confidence 346788888888764
No 34
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=38.98 E-value=29 Score=17.54 Aligned_cols=18 Identities=22% Similarity=0.187 Sum_probs=14.7
Q ss_pred hcHHHHHHHHHHHHhCcE
Q psy14094 111 FNFEKAYFILDELLLGGE 128 (149)
Q Consensus 111 ~Nf~~v~~llDE~id~G~ 128 (149)
.+++.+..++++|...|+
T Consensus 15 g~~~~a~~~~~~M~~~gv 32 (34)
T PF13812_consen 15 GDPDAALQLFDEMKEQGV 32 (34)
T ss_pred CCHHHHHHHHHHHHHhCC
Confidence 346778999999999885
No 35
>PF15047 DUF4533: Protein of unknown function (DUF4533)
Probab=38.71 E-value=56 Score=25.78 Aligned_cols=38 Identities=24% Similarity=0.331 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHhcc------cCHH-HHHhcHHHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGS------VCEL-DIIFNFEKAYFILDEL 123 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~------v~E~-~i~~Nf~~v~~llDE~ 123 (149)
...|-+.+.++|+...+. +.|+ .|++||+.+..++-||
T Consensus 19 ~~s~TN~L~elfN~~m~tqi~~i~mkEd~~IKd~~eqmi~~~kem 63 (225)
T PF15047_consen 19 LFSFTNTLTELFNSHMNTQILLIAMKEDSNIKDNFEQMIKIFKEM 63 (225)
T ss_pred HHHHHHHHHHHHHhccccceeeeeecccCcHHHHHHHHHHHHHHH
Confidence 467788899999999985 4555 6999999998887665
No 36
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=37.27 E-value=21 Score=23.90 Aligned_cols=42 Identities=12% Similarity=0.131 Sum_probs=35.2
Q ss_pred HHHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhh
Q psy14094 106 ELDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLL 147 (149)
Q Consensus 106 E~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~ 147 (149)
...++.+...|-=+||.+.++|++.+-+.+++...=+.|||.
T Consensus 7 Re~LV~rI~~v~plLD~Ll~n~~it~E~y~~V~a~~T~qdkm 48 (85)
T cd08324 7 RELLVTHIRNTQCLVDNLLKNDYFSTEDAEIVCACPTQPDKV 48 (85)
T ss_pred HHHHHHHHHhhHHHHHHHhccCCccHHHHHHHHhCCCCHHHH
Confidence 456778888888899999999999999999988877777765
No 37
>PF09201 SRX: SRX; InterPro: IPR015284 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents a homologue of the alpha subunit of the SR receptor. Members of this entry consist of a central six-stranded anti-parallel beta-sheet sandwiched by helix alpha1 on one side and helices alpha2-alpha4 on the other. They interact with the small GTPase SR-beta, forming a complex that matches a class of small G protein-effector complexes, including Rap-Raf, Ras-PI3K(gamma), Ras-RalGDS, and Arl2-PDE(delta) []. ; PDB: 1NRJ_A.
Probab=37.06 E-value=1.7e+02 Score=21.56 Aligned_cols=73 Identities=16% Similarity=0.318 Sum_probs=33.5
Q ss_pred hhceeEEEeCCCCEEEEecCCC--CChhhHHHHHHHHHHHhhccCC--CccceeEe-------CCEEEEEEE--eCcEEE
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVA--HPDKLKKKITRELITTILARKP--KMCSFLEW-------KDVKIVYKR--YASLYF 73 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~--~~~~~~~~~~~~~~~~~~~~~~--~~~pi~~~-------~~~~~vy~~--~~~Lyf 73 (149)
|+..+.|+..+|++++.-.=-+ .......++...+...-.++.+ ....+..+ ++++++|.- ...|||
T Consensus 1 MfdQlaIFTpqGqvLyqyN~~gKKFsE~QiN~FIs~lItsP~~~~e~~~~~k~~~i~s~~~~~~~f~~mfh~sKQPeLy~ 80 (148)
T PF09201_consen 1 MFDQLAIFTPQGQVLYQYNCLGKKFSETQINAFISHLITSPVTKKEDSSKSKFLTISSEKKNSRSFSAMFHISKQPELYY 80 (148)
T ss_dssp ---EEEEE-TT-BEEEEEETTS----HHHHHHHHHHHHHS---GGGTT--EEEEE-----------EEEEEEETTTTEEE
T ss_pred CcceeEEeccCceEEEEecccchHHHHHHHHHHHHHHhcCCCcccCCCcceeeEEecccccCCCChheeeeecCCCcEEE
Confidence 7888999999999997543222 2333344444444333222221 12334433 366665543 457999
Q ss_pred EEEecC
Q psy14094 74 CCAIEQ 79 (149)
Q Consensus 74 v~v~~~ 79 (149)
|++-.+
T Consensus 81 VvTyae 86 (148)
T PF09201_consen 81 VVTYAE 86 (148)
T ss_dssp EEEESS
T ss_pred EEEecc
Confidence 998776
No 38
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=35.23 E-value=41 Score=22.49 Aligned_cols=21 Identities=29% Similarity=0.132 Sum_probs=18.3
Q ss_pred cHHHHHHHHHHHHhCcEeeec
Q psy14094 112 NFEKAYFILDELLLGGEIQET 132 (149)
Q Consensus 112 Nf~~v~~llDE~id~G~~~~T 132 (149)
+-..|...+|++++.|.+..|
T Consensus 78 ~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 78 SENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp -HHHHHHHHHHHHHTTSEEES
T ss_pred CHHHHHHHHHHHHhCCeEecc
Confidence 457889999999999999987
No 39
>KOG4281|consensus
Probab=35.05 E-value=43 Score=26.48 Aligned_cols=40 Identities=23% Similarity=0.168 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhcccCHHHHHhcHHHHHHHHHHHH--hCcE
Q psy14094 89 IIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELL--LGGE 128 (149)
Q Consensus 89 ~L~~lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~i--d~G~ 128 (149)
+.++|..++++-|.+..--.--+|..++-.+|||+- |=|+
T Consensus 3 ~vq~l~ntck~~fs~~~pg~~~~nlqkLr~vLd~lkp~Dvgl 44 (236)
T KOG4281|consen 3 FVQRLFNTCKEVFSTGGPGPFEENLQKLRSVLDELKPEDVGL 44 (236)
T ss_pred hhHHHHHHHHHHhcCCCCCccHHHHHHHHHHHhhCCHhhcCc
Confidence 678999999999986433355677899999999986 5454
No 40
>PRK13599 putative peroxiredoxin; Provisional
Probab=34.72 E-value=79 Score=24.40 Aligned_cols=33 Identities=18% Similarity=0.406 Sum_probs=22.5
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITR 39 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~ 39 (149)
.+.+.||+|.+|+++..-+|.....+...++.+
T Consensus 118 ~~R~tfIID~dG~Ir~~~~~p~~~gr~~~eilr 150 (215)
T PRK13599 118 TVRAVFIVDDKGTIRLIMYYPQEVGRNVDEILR 150 (215)
T ss_pred eeeEEEEECCCCEEEEEEEcCCCCCCCHHHHHH
Confidence 367899999999999997776443333333333
No 41
>PRK13190 putative peroxiredoxin; Provisional
Probab=33.61 E-value=82 Score=23.86 Aligned_cols=33 Identities=15% Similarity=0.234 Sum_probs=23.4
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHH
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRE 40 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~ 40 (149)
+.+.||+|.+|+++....|.....+...++.+.
T Consensus 117 ~p~~fiId~~G~I~~~~~~~~~~gr~~~ellr~ 149 (202)
T PRK13190 117 VRGVFIIDPNQIVRWMIYYPAETGRNIDEIIRI 149 (202)
T ss_pred EeEEEEECCCCEEEEEEEeCCCCCCCHHHHHHH
Confidence 678999999999998887775544444444433
No 42
>KOG1766|consensus
Probab=32.38 E-value=75 Score=21.86 Aligned_cols=41 Identities=10% Similarity=0.193 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHhccc--CHHHHHhcHHHHHHHHHHHHhC
Q psy14094 86 TLEIIHRYVELLDKYFGSV--CELDIIFNFEKAYFILDELLLG 126 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~v--~E~~i~~Nf~~v~~llDE~id~ 126 (149)
+-+.+..++.+.+++++.. +-..|-.....+|+.+|.+.|-
T Consensus 25 v~e~megiCk~yEe~Lkk~nPs~~~ITYDIsqlfeFiD~L~Dl 67 (104)
T KOG1766|consen 25 VTECMEGICKMYEEHLKKKNPSAPPITYDISQLFEFIDDLADL 67 (104)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCcceeHHHHHHHHHHHhhh
Confidence 5567778888888999764 6667888899999999999875
No 43
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=32.37 E-value=1e+02 Score=23.25 Aligned_cols=21 Identities=24% Similarity=0.460 Sum_probs=17.4
Q ss_pred ceeEEEeCCCCEEEEecCCCC
Q psy14094 9 QFMLLFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 9 ~~i~iln~~G~~ll~k~y~~~ 29 (149)
.+.||+|.+|+++....|...
T Consensus 118 r~~fiID~~G~I~~~~~~~~~ 138 (203)
T cd03016 118 RAVFIIDPDKKIRLILYYPAT 138 (203)
T ss_pred eEEEEECCCCeEEEEEecCCC
Confidence 468999999999988888543
No 44
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=32.32 E-value=91 Score=24.12 Aligned_cols=32 Identities=9% Similarity=0.040 Sum_probs=24.3
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKIT 38 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~ 38 (149)
...++||+|.+|.++..-.|.....+...+..
T Consensus 123 a~R~~FIIDp~g~ir~~~v~~~~iGRn~dEil 154 (194)
T COG0450 123 ALRGTFIIDPDGVIRHILVNPLTIGRNVDEIL 154 (194)
T ss_pred ceeEEEEECCCCeEEEEEEecCCCCcCHHHHH
Confidence 56789999999999999999866444333333
No 45
>KOG0861|consensus
Probab=32.02 E-value=2.4e+02 Score=21.72 Aligned_cols=90 Identities=8% Similarity=0.048 Sum_probs=53.6
Q ss_pred hhceeEEEeCCCC--EEEEecCCC-----CChhhHHHHHHHHHHHhhccCCC-ccceeEeCCEE-EEEEEeCcEEEEEEe
Q psy14094 7 NMQFMLLFSRQGK--LRLQKWYVA-----HPDKLKKKITRELITTILARKPK-MCSFLEWKDVK-IVYKRYASLYFCCAI 77 (149)
Q Consensus 7 mi~~i~iln~~G~--~ll~k~y~~-----~~~~~~~~~~~~~~~~~~~~~~~-~~pi~~~~~~~-~vy~~~~~Lyfv~v~ 77 (149)
-|-++.++...+. .+++.-++= .......++.-.+-+.+..|++. +-.-+.++.+. .+|.|..+|--++++
T Consensus 2 ki~sl~V~~~~~~~~~ll~~a~dls~FsfFqRssV~Efm~F~sktvaeRt~~g~rqsvk~~~Y~~h~yvrndgL~~V~~~ 81 (198)
T KOG0861|consen 2 KIYSLSVLHKGTSDVKLLKTASDLSSFSFFQRSSVQEFMTFISKTVAERTGPGQRQSVKHEEYLVHVYVRNDGLCGVLIA 81 (198)
T ss_pred ceEEEEEEeeCCcchhhhhhhcccccccceeeccHHHHHHHHHHHHHHhcCcccccccccceeEEEEEEecCCeeEEEEe
Confidence 3566777777443 333333221 01122444555555555555532 11224455654 689999999999999
Q ss_pred cCCCCHHHHHHHHHHHHHH
Q psy14094 78 EQNDNELLTLEIIHRYVEL 96 (149)
Q Consensus 78 ~~~~n~l~ile~L~~lv~~ 96 (149)
|.+..--..+.+|+++-+-
T Consensus 82 D~eYP~rvA~tLL~kvld~ 100 (198)
T KOG0861|consen 82 DDEYPVRVAFTLLNKVLDE 100 (198)
T ss_pred cCcCchhHHHHHHHHHHHH
Confidence 9888888888888765443
No 46
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=31.83 E-value=95 Score=20.46 Aligned_cols=35 Identities=26% Similarity=-0.030 Sum_probs=20.6
Q ss_pred HHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEee
Q psy14094 96 LLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQ 130 (149)
Q Consensus 96 ~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~~ 130 (149)
.+...+++..+.+.-..-.....+++.+.|.|++.
T Consensus 7 ~l~~~~~~~~~~~~~~~~~~~~~il~~L~d~GyI~ 41 (88)
T PF09639_consen 7 YLYKCMKNGKEPDPDITDSYWSDILRMLQDEGYIK 41 (88)
T ss_dssp HHHHH-S---HHHHTS-HHHHHHHHHHHHHHTSEE
T ss_pred HHHHHHcCCCCCCcchhHHHHHHHHHHHHHCCCcc
Confidence 34444555555443333377888999999999984
No 47
>PRK13191 putative peroxiredoxin; Provisional
Probab=30.48 E-value=1e+02 Score=23.71 Aligned_cols=34 Identities=18% Similarity=0.384 Sum_probs=23.8
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHHH
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITREL 41 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~ 41 (149)
..+.||+|.+|.++..-.|.....+...++.+.+
T Consensus 124 ~r~tfIID~~G~Ir~~~~~~~~~gr~~~eilr~l 157 (215)
T PRK13191 124 VRAVFIVDDKGTVRLILYYPMEIGRNIDEILRAI 157 (215)
T ss_pred eEEEEEECCCCEEEEEEecCCCCCCCHHHHHHHH
Confidence 5689999999999999888754444444444433
No 48
>smart00571 DDT domain in different transcription and chromosome remodeling factors.
Probab=29.83 E-value=46 Score=20.58 Aligned_cols=17 Identities=18% Similarity=0.450 Sum_probs=15.0
Q ss_pred CCHHHHHHHHHHHHHHH
Q psy14094 81 DNELLTLEIIHRYVELL 97 (149)
Q Consensus 81 ~n~l~ile~L~~lv~~l 97 (149)
.+.+++++||+.+.++|
T Consensus 5 ~d~l~V~eFl~~F~~~L 21 (63)
T smart00571 5 GDLLMVYEFLRSFGKVL 21 (63)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 36789999999999998
No 49
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=29.20 E-value=54 Score=16.17 Aligned_cols=20 Identities=25% Similarity=0.192 Sum_probs=16.0
Q ss_pred hcHHHHHHHHHHHHhCcEee
Q psy14094 111 FNFEKAYFILDELLLGGEIQ 130 (149)
Q Consensus 111 ~Nf~~v~~llDE~id~G~~~ 130 (149)
.++..+.+++++|...|..-
T Consensus 14 ~~~~~a~~~~~~M~~~g~~p 33 (35)
T TIGR00756 14 GRVEEALELFKEMLERGIEP 33 (35)
T ss_pred CCHHHHHHHHHHHHHcCCCC
Confidence 35678899999999988754
No 50
>PF13867 SAP30_Sin3_bdg: Sin3 binding region of histone deacetylase complex subunit SAP30; PDB: 2LD7_A.
Probab=28.79 E-value=78 Score=18.94 Aligned_cols=23 Identities=35% Similarity=0.431 Sum_probs=16.6
Q ss_pred HHHHHHHHHhcc--cCHHHHHhcHH
Q psy14094 92 RYVELLDKYFGS--VCELDIIFNFE 114 (149)
Q Consensus 92 ~lv~~l~~yf~~--v~E~~i~~Nf~ 114 (149)
.++..+.+.|.+ ++|.+++-+|.
T Consensus 25 qLa~~V~kHF~s~~v~E~evI~~Fl 49 (53)
T PF13867_consen 25 QLANAVRKHFNSQPVDENEVIANFL 49 (53)
T ss_dssp HHHHHHHHHHTT----HHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 567788888876 78999888875
No 51
>PF02334 RTP: Replication terminator protein; InterPro: IPR003432 The bacterial replication terminator protein (RTP) plays a role in the termination of DNA replication by impeding replication fork movement. Two RTP dimers bind to the two inverted repeat regions at the termination site.; GO: 0003677 DNA binding, 0006274 DNA replication termination; PDB: 2DPU_A 2DPD_A 1F4K_A 1J0R_B 2EFW_F 2DQR_B 1BM9_B.
Probab=28.34 E-value=1.2e+02 Score=21.57 Aligned_cols=34 Identities=24% Similarity=0.272 Sum_probs=22.8
Q ss_pred HHHHHHHHhcccCHHHHHhcHHHHHHHHHHHHhCcEe
Q psy14094 93 YVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEI 129 (149)
Q Consensus 93 lv~~l~~yf~~v~E~~i~~Nf~~v~~llDE~id~G~~ 129 (149)
+.+.|+.=|+++. ..=|=..||-.|+|++|+|+.
T Consensus 37 ~Ld~lr~EFk~~G---y~P~hsEvYraLHeL~~dGil 70 (122)
T PF02334_consen 37 LLDELRSEFKPLG---YRPNHSEVYRALHELVDDGIL 70 (122)
T ss_dssp HHHHHHHHHTTTT-------HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHhhhcC---CCCCHHHHHHHHHHHHhhhHH
Confidence 3455666666544 555678899999999999997
No 52
>PRK15360 pathogenicity island 2 effector protein SseE; Provisional
Probab=27.48 E-value=2.5e+02 Score=20.52 Aligned_cols=43 Identities=7% Similarity=0.093 Sum_probs=28.3
Q ss_pred ceeEeCCEEEEEEEeCc-EEEEEEecCC---CCHHHHHHHHHHHHHH
Q psy14094 54 SFLEWKDVKIVYKRYAS-LYFCCAIEQN---DNELLTLEIIHRYVEL 96 (149)
Q Consensus 54 pi~~~~~~~~vy~~~~~-Lyfv~v~~~~---~n~l~ile~L~~lv~~ 96 (149)
--+.+.++..+||--++ +++|..-..+ ..|..++.+++.+..+
T Consensus 29 ~~~~~~g~~lvyRvE~~eliIc~lrR~~~~~~~p~~~~~L~~~L~~l 75 (137)
T PRK15360 29 QQFILSPYLVIYRIEAKEMIICEFRRLTPGQPRPQQLFHLLGLLRGI 75 (137)
T ss_pred EEEEEcCEEEEEEecCCEEEEEEEEeccCCCCCHHHHHHHHHHHHHH
Confidence 44678999999998765 6666666544 3466666655544333
No 53
>PF13041 PPR_2: PPR repeat family
Probab=27.39 E-value=56 Score=18.47 Aligned_cols=22 Identities=23% Similarity=0.286 Sum_probs=18.4
Q ss_pred hcHHHHHHHHHHHHhCcEeeec
Q psy14094 111 FNFEKAYFILDELLLGGEIQET 132 (149)
Q Consensus 111 ~Nf~~v~~llDE~id~G~~~~T 132 (149)
.+++.+..+++||...|++-..
T Consensus 17 ~~~~~a~~l~~~M~~~g~~P~~ 38 (50)
T PF13041_consen 17 GKFEEALKLFKEMKKRGIKPDS 38 (50)
T ss_pred cCHHHHHHHHHHHHHcCCCCCH
Confidence 4688999999999999986544
No 54
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=27.38 E-value=1.4e+02 Score=21.57 Aligned_cols=18 Identities=11% Similarity=0.211 Sum_probs=14.0
Q ss_pred hceeEEEeCCCCEEEEec
Q psy14094 8 MQFMLLFSRQGKLRLQKW 25 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~ 25 (149)
+...|++|++|+++..-.
T Consensus 120 ~p~~~lID~~G~I~~~~~ 137 (173)
T cd03015 120 LRGTFIIDPEGIIRHITV 137 (173)
T ss_pred eeEEEEECCCCeEEEEEe
Confidence 457899999997776663
No 55
>PRK13189 peroxiredoxin; Provisional
Probab=26.52 E-value=1.4e+02 Score=23.09 Aligned_cols=23 Identities=13% Similarity=0.391 Sum_probs=18.4
Q ss_pred hhceeEEEeCCCCEEEEecCCCC
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~ 29 (149)
.+.+.||+|.+|.++....|...
T Consensus 125 ~~r~tfIID~~G~Ir~~~~~~~~ 147 (222)
T PRK13189 125 TVRAVFIIDPKGIIRAILYYPQE 147 (222)
T ss_pred ceeEEEEECCCCeEEEEEecCCC
Confidence 35679999999999988777543
No 56
>PF04614 Pex19: Pex19 protein family; InterPro: IPR006708 Peroxisome(s) form an intracellular compartment, bounded by a typical lipid bilayer membrane. Peroxisome functions are often specialised by organism and cell type; two widely distributed and well-conserved functions are H2O2-based respiration and fatty acid beta-oxidation. Other functions include ether lipid (plasmalogen) synthesis and cholesterol synthesis in animals, the glyoxylate cycle in germinating seeds ("glyoxysomes"), photorespiration in leaves, glycolysis in trypanosomes ("glycosomes"), and methanol and/or amine oxidation and assimilation in some yeasts. PEX genes encode the machinery ("peroxins") required to assemble the peroxisome. Membrane assembly and maintenance requires three of these (peroxins 3, 16, and 19) and may occur without the import of the matrix (lumen) enzymes. Matrix protein import follows a branched pathway of soluble recycling receptors, with one branch for each class of peroxisome targeting sequence (two are well characterised), and a common trunk for all. At least one of these receptors, Pex5p, enters and exits peroxisomes as it functions. Proliferation of the organelle is regulated by Pex11p. Peroxisome biogenesis is remarkably conserved among eukaryotes. A group of fatal, inherited neuropathologies are recognised as peroxisome biogenesis diseases. ; GO: 0005777 peroxisome; PDB: 2WL8_B 2W85_B.
Probab=26.19 E-value=1.6e+02 Score=23.34 Aligned_cols=17 Identities=6% Similarity=0.151 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHhc
Q psy14094 86 TLEIIHRYVELLDKYFG 102 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~ 102 (149)
+++=|..+.+-+-.|+.
T Consensus 141 LYePmKel~~kyP~wL~ 157 (248)
T PF04614_consen 141 LYEPMKELRDKYPEWLE 157 (248)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHHHHHhHHHHH
Confidence 67777777777777773
No 57
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=25.11 E-value=69 Score=19.54 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=15.0
Q ss_pred CHHHHHHHHHHHHHHHH
Q psy14094 82 NELLTLEIIHRYVELLD 98 (149)
Q Consensus 82 n~l~ile~L~~lv~~l~ 98 (149)
+-+++++||+.+.++|.
T Consensus 6 ~~L~v~~Fl~~F~~~L~ 22 (61)
T PF02791_consen 6 DLLMVWEFLNTFGEVLG 22 (61)
T ss_pred HHHHHHHHHHHHHHHHc
Confidence 56899999999999887
No 58
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=24.54 E-value=1.2e+02 Score=22.82 Aligned_cols=32 Identities=9% Similarity=0.103 Sum_probs=22.1
Q ss_pred ceeEEEeCCCCEEEEecCCCCChhhHHHHHHH
Q psy14094 9 QFMLLFSRQGKLRLQKWYVAHPDKLKKKITRE 40 (149)
Q Consensus 9 ~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~ 40 (149)
.+.||+|.+|+++....+.....+...++.+.
T Consensus 120 r~tfIID~~G~I~~~~~~~~~~~~~~~eil~~ 151 (187)
T PRK10382 120 RATFVVDPQGIIQAIEVTAEGIGRDASDLLRK 151 (187)
T ss_pred eEEEEECCCCEEEEEEEeCCCCCCCHHHHHHH
Confidence 77899999999999877764433334344433
No 59
>PRK10397 lipoprotein; Provisional
Probab=23.39 E-value=63 Score=23.44 Aligned_cols=21 Identities=10% Similarity=0.061 Sum_probs=18.5
Q ss_pred eeEEEeCCCCEEEEecCCCCC
Q psy14094 10 FMLLFSRQGKLRLQKWYVAHP 30 (149)
Q Consensus 10 ~i~iln~~G~~ll~k~y~~~~ 30 (149)
+=+|++++|+.+.+|.|...+
T Consensus 54 aSLivt~~GdtldCrqWqrvi 74 (137)
T PRK10397 54 ASLIVTKEGDTLDCRQWQRVI 74 (137)
T ss_pred EEEEEecCCCEEeehhcceee
Confidence 678999999999999998753
No 60
>PRK15000 peroxidase; Provisional
Probab=23.24 E-value=1.8e+02 Score=22.01 Aligned_cols=34 Identities=15% Similarity=0.070 Sum_probs=22.8
Q ss_pred hhceeEEEeCCCCEEEEecCCCCChhhHHHHHHH
Q psy14094 7 NMQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRE 40 (149)
Q Consensus 7 mi~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~ 40 (149)
.+.+.||+|++|.++....+.....+...++.+.
T Consensus 124 ~~r~tfiID~~G~I~~~~~~~~~~gr~~~eilr~ 157 (200)
T PRK15000 124 ALRGSFLIDANGIVRHQVVNDLPLGRNIDEMLRM 157 (200)
T ss_pred EEeEEEEECCCCEEEEEEecCCCCCCCHHHHHHH
Confidence 4678899999999999877654433333334433
No 61
>KOG1373|consensus
Probab=23.01 E-value=1.2e+02 Score=26.17 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCHHH----HHhcH-----HHHHHHHHHHHhCcEeeecCHHH
Q psy14094 85 LTLEIIHRYVELLDKYFGSVCELD----IIFNF-----EKAYFILDELLLGGEIQETSKKN 136 (149)
Q Consensus 85 ~ile~L~~lv~~l~~yf~~v~E~~----i~~Nf-----~~v~~llDE~id~G~~~~Td~~~ 136 (149)
+++.+.+..+-++..++|..+|.. +.=++ .++..+|||+++-||=..+-.+.
T Consensus 123 iii~vgqa~~yV~tG~yG~p~dLg~~~clLii~QL~~Agiiv~lLdEllqKGyGlgSGisl 183 (476)
T KOG1373|consen 123 IIITVGQAVVYVMTGMYGSPSDLGVGICLLIILQLFFAGIIVILLDELLQKGYGLGSGISL 183 (476)
T ss_pred HHHHHHHHHHHhhhcccCChhhcchhHHHHHHHHHHHhhHHHHHHHHHHHhccCcCcchhh
Confidence 466777888889999999766653 22222 25667899999999977665544
No 62
>TIGR03137 AhpC peroxiredoxin. This gene contains two invariant cysteine residues, one near the N-terminus and one near the C-terminus, each followed immediately by a proline residue.
Probab=22.76 E-value=1.4e+02 Score=22.13 Aligned_cols=34 Identities=6% Similarity=0.056 Sum_probs=20.9
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHHH
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITREL 41 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~ 41 (149)
..+.||+|++|.++..........+...++.+.+
T Consensus 119 ~p~tfiID~~G~I~~~~~~~~~~~~~~~~ll~~l 152 (187)
T TIGR03137 119 DRGTFVIDPEGVIQAVEITDNGIGRDASELLRKI 152 (187)
T ss_pred eeEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHH
Confidence 3578999999999977655433222333344433
No 63
>PF09561 RE_HpaII: HpaII restriction endonuclease; InterPro: IPR019062 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This family includes HpaII, which recognises the double-stranded sequence CCGG and cleaves after C-1.
Probab=22.60 E-value=3.2e+02 Score=23.14 Aligned_cols=56 Identities=11% Similarity=0.193 Sum_probs=36.7
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHHHHHHhhccCCCccceeEeCCEEEEEEEeCcEEE
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASLYF 73 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~~~~~~vy~~~~~Lyf 73 (149)
.-+.+|++.+|++++-..|. +..++.-++..+. -+ .|--.-.++-.+|+..+..||
T Consensus 292 ~gGyivV~~dGevlcYHiy~------rn~FedYL~~NTk--le--~~SssRh~fG~iy~enG~~yf 347 (355)
T PF09561_consen 292 TGGYIVVKEDGEVLCYHIYN------RNEFEDYLYNNTK--LE--TPSSSRHKFGFIYRENGEYYF 347 (355)
T ss_pred cceEEEEeCCCCEEEEEehh------HHHHHHHHHhccc--cc--CCCCCcccceEEEEECCEEEE
Confidence 34789999999999887665 4457777775532 11 122223567889997666665
No 64
>PF05746 DALR_1: DALR anticodon binding domain; InterPro: IPR008909 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This all alpha helical domain is the anticodon binding domain of Arginyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids [].; GO: 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1F7V_A 1F7U_A 1BS2_A 1IQ0_A.
Probab=22.28 E-value=1.4e+02 Score=20.00 Aligned_cols=46 Identities=9% Similarity=0.072 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHhccc----CHHHHH-hcHHHHHHHHHHHHhC
Q psy14094 81 DNELLTLEIIHRYVELLDKYFGSV----CELDII-FNFEKAYFILDELLLG 126 (149)
Q Consensus 81 ~n~l~ile~L~~lv~~l~~yf~~v----~E~~i~-~Nf~~v~~llDE~id~ 126 (149)
-+|-.+.++|..+...++.||+++ .+..++ .|=-.+......++..
T Consensus 56 ~~p~~l~~yL~~La~~f~~fy~~~~I~~~~~~~~~~~RL~Ll~~v~~vl~~ 106 (119)
T PF05746_consen 56 LEPHKLCDYLYELAQAFNSFYDNVRILDEDEEIRKNNRLALLKAVRQVLKN 106 (119)
T ss_dssp T-CHHHHHHHHHHHHHHHHHHHHS-STTSTTCHH-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHH
Confidence 566778888999999999999752 222344 4433444444444433
No 65
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They se
Probab=22.27 E-value=47 Score=21.73 Aligned_cols=41 Identities=20% Similarity=0.110 Sum_probs=29.2
Q ss_pred HHHHhcHHHHHHHHHHHHhCcEeeecCHHHHHHHHHHHhhh
Q psy14094 107 LDIIFNFEKAYFILDELLLGGEIQETSKKNVLKAIAAQDLL 147 (149)
Q Consensus 107 ~~i~~Nf~~v~~llDE~id~G~~~~Td~~~i~~~i~~~~~~ 147 (149)
..+..+...|-.++|-+...|++-+.+.+.|+..=+.|++.
T Consensus 8 ~~Li~~v~~v~~ilD~L~~~~Vit~e~~~~I~a~~T~~~ka 48 (82)
T cd08330 8 EALIARVTNVDPILDKLHGKKVITQEQYSEVRAEKTNQEKM 48 (82)
T ss_pred HHHHHHHhhHHHHHHHHHHCCCCCHHHHHHHHcCCCcHHHH
Confidence 34666666778888888888888887777777655555443
No 66
>COG1443 Idi Isopentenyldiphosphate isomerase [Lipid metabolism]
Probab=21.88 E-value=62 Score=24.75 Aligned_cols=18 Identities=28% Similarity=0.433 Sum_probs=14.9
Q ss_pred hceeEEEeCCCCEEEEec
Q psy14094 8 MQFMLLFSRQGKLRLQKW 25 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~ 25 (149)
.-+.||+|.+|+.++.|-
T Consensus 35 AFS~~lFne~g~LLltrR 52 (185)
T COG1443 35 AFSSFLFNERGQLLLTRR 52 (185)
T ss_pred hhheeEECCCCceeeehh
Confidence 346789999999999874
No 67
>cd05165 PI3Kc_I Phosphoinositide 3-kinase (PI3K), class I, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. In vitro, they can also phosphorylate the substrates P
Probab=21.87 E-value=1.3e+02 Score=25.54 Aligned_cols=84 Identities=12% Similarity=0.169 Sum_probs=52.9
Q ss_pred cceeEeCCEEEEEEEeCcEEEEEEecCCC-CHHHHHHHHHHHHHHHH-----------HHhcccCHH---HHHhcHHHHH
Q psy14094 53 CSFLEWKDVKIVYKRYASLYFCCAIEQND-NELLTLEIIHRYVELLD-----------KYFGSVCEL---DIIFNFEKAY 117 (149)
Q Consensus 53 ~pi~~~~~~~~vy~~~~~Lyfv~v~~~~~-n~l~ile~L~~lv~~l~-----------~yf~~v~E~---~i~~Nf~~v~ 117 (149)
.+++...+-+++|+-++.++--.-..... .|.+=+-+=+.+++++. ..|...|+. .++.|-..+.
T Consensus 222 ~NILi~~~G~l~HIDFG~ilg~~~~~~~i~~E~~PFkLT~emv~~mg~~~~~~~s~~f~~F~~~c~~a~~~LR~~~~~il 301 (366)
T cd05165 222 DNIMVKETGQLFHIDFGHILGNYKSKFGINRERVPFVLTPDFVHVIGRGKKDNTSEHFQRFQDLCEKAYLALRRHGNLLI 301 (366)
T ss_pred cceEEcCCCCEEEEehHHhhccCCccCCCCCCCCCeeecHHHHHHhcccCCcCCChhhhHHHHHHHHHHHHHHhCHHHHH
Confidence 46777677789999888665221111111 11122223344555553 466666666 4889999999
Q ss_pred HHHHHHHhCcEeeecCHHH
Q psy14094 118 FILDELLLGGEIQETSKKN 136 (149)
Q Consensus 118 ~llDE~id~G~~~~Td~~~ 136 (149)
-++.=|++.|+|.-+..+.
T Consensus 302 ~l~~lM~~s~ip~~~~~~~ 320 (366)
T cd05165 302 ILFSMMLMSGLPELTSKED 320 (366)
T ss_pred HHHHHHhcCCCcccCchhH
Confidence 9998888999999886544
No 68
>PRK08937 adenylosuccinate lyase; Provisional
Probab=21.55 E-value=3.6e+02 Score=20.28 Aligned_cols=58 Identities=16% Similarity=0.124 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHhcc--cCHHHHHhcHHH------HHHHHHHHHhCcEeeecCHHHHHHHHHH
Q psy14094 86 TLEIIHRYVELLDKYFGS--VCELDIIFNFEK------AYFILDELLLGGEIQETSKKNVLKAIAA 143 (149)
Q Consensus 86 ile~L~~lv~~l~~yf~~--v~E~~i~~Nf~~------v~~llDE~id~G~~~~Td~~~i~~~i~~ 143 (149)
.+..+....+.+...+.+ ++++.++.|... .-.+.++++..|++..+--+.+.+.+..
T Consensus 113 ~~~~~~~~l~~~~~~l~~l~v~~~rm~~~~~~~~~~~~a~~l~~~L~~~g~~~~~Ah~~v~~~~~~ 178 (216)
T PRK08937 113 AFLALDYILNRFVNILENLVVFPENIERNLDKTLGFIATERVLLELVEKGMGREEAHELIREKAME 178 (216)
T ss_pred HHHHHHHHHHHHHHHHccCEECHHHHHHHHHHhcChHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 344455555666666665 688888888765 7777889998899888888877776554
No 69
>cd03671 Ap4A_hydrolase_plant_like Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant enzymes fall into one group (represented by this subfamily) and fungi/animals/archaea enzymes fall into another. Bacterial enzymes are found in both subfamilies. Ap4A is a potential by-product of aminoacyl tRNA synthesis, and accumulation of Ap4A has been implicated in a range of biological events, such as DNA replication, cellular differentiation, heat shock, metabolic stress, and apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically into ATP and AMP. It is important in the invasive properties of bacteria and thus presents a potential target for the inhibition of such invasive bacteria. Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU where U is Ile, Leu, or Val), Ap4A hydrolase is structurally
Probab=21.42 E-value=98 Score=21.82 Aligned_cols=20 Identities=20% Similarity=0.288 Sum_probs=15.9
Q ss_pred ceeEEEeCCCCEEEEecCCC
Q psy14094 9 QFMLLFSRQGKLRLQKWYVA 28 (149)
Q Consensus 9 ~~i~iln~~G~~ll~k~y~~ 28 (149)
-+++|+|.+|++++.|.++.
T Consensus 6 v~~ii~~~~~~vLL~~r~~~ 25 (147)
T cd03671 6 VGVVLFNEDGKVFVGRRIDT 25 (147)
T ss_pred EEEEEEeCCCEEEEEEEcCC
Confidence 35778899999999887664
No 70
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=20.68 E-value=1.9e+02 Score=23.19 Aligned_cols=33 Identities=12% Similarity=0.094 Sum_probs=22.9
Q ss_pred hceeEEEeCCCCEEEEecCCCCChhhHHHHHHH
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRE 40 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~~~~~~~~~~~~ 40 (149)
..+.||+|.+|.++....|.....+...++.+.
T Consensus 188 ~R~tFIID~dG~I~~~~~~~~~~gr~v~eiLr~ 220 (261)
T PTZ00137 188 HRASVLVDKAGVVKHVAVYDLGLGRSVDETLRL 220 (261)
T ss_pred ecEEEEECCCCEEEEEEEeCCCCCCCHHHHHHH
Confidence 567899999999999887765443344444443
No 71
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=20.14 E-value=2.1e+02 Score=21.40 Aligned_cols=22 Identities=14% Similarity=0.117 Sum_probs=17.0
Q ss_pred hceeEEEeCCCCEEEEecCCCC
Q psy14094 8 MQFMLLFSRQGKLRLQKWYVAH 29 (149)
Q Consensus 8 i~~i~iln~~G~~ll~k~y~~~ 29 (149)
..+.||+|.+|+++..-.+...
T Consensus 127 ~r~~fiID~~G~i~~~~~~~~~ 148 (199)
T PTZ00253 127 YRGLFIIDPKGMLRQITVNDMP 148 (199)
T ss_pred EEEEEEECCCCEEEEEEecCCC
Confidence 3578999999999987666433
Done!