Query psy17065
Match_columns 150
No_of_seqs 112 out of 1053
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 20:58:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17065.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17065hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03107 eukaryotic translatio 100.0 1.6E-49 3.6E-54 307.5 18.3 149 1-150 1-151 (159)
2 PTZ00328 eukaryotic initiation 100.0 4.3E-44 9.2E-49 277.5 16.8 149 1-150 1-158 (166)
3 TIGR00037 eIF_5A translation i 100.0 2.8E-43 6.1E-48 264.7 15.5 126 16-150 1-127 (130)
4 PRK03999 translation initiatio 100.0 2.6E-40 5.6E-45 248.4 15.2 123 19-150 3-126 (129)
5 KOG3271|consensus 100.0 8.8E-41 1.9E-45 252.6 11.0 148 1-150 1-148 (156)
6 COG0231 Efp Translation elonga 100.0 4.5E-39 9.7E-44 242.3 15.3 120 20-147 2-122 (131)
7 PRK12426 elongation factor P; 100.0 7.3E-38 1.6E-42 247.5 15.6 116 21-142 1-117 (185)
8 PRK14578 elongation factor P; 100.0 1.3E-36 2.9E-41 240.7 15.9 117 21-142 1-119 (187)
9 PRK04542 elongation factor P; 100.0 1.5E-36 3.3E-41 240.7 15.5 117 21-142 1-120 (189)
10 TIGR02178 yeiP elongation fact 100.0 9E-35 1.9E-39 230.1 15.8 114 24-142 2-118 (186)
11 PRK00529 elongation factor P; 100.0 9.8E-35 2.1E-39 229.6 15.7 116 21-142 1-117 (186)
12 TIGR00038 efp translation elon 100.0 2.6E-34 5.7E-39 226.9 15.9 115 22-142 1-116 (184)
13 PF08207 EFP_N: Elongation fac 99.9 1.5E-21 3.3E-26 128.0 8.9 58 23-81 1-58 (58)
14 PF01287 eIF-5a: Eukaryotic el 99.6 9.5E-16 2.1E-20 104.1 8.7 66 85-150 1-66 (69)
15 cd04468 S1_eIF5A S1_eIF5A: Euk 99.6 5.2E-15 1.1E-19 100.4 6.0 64 86-150 1-64 (69)
16 cd04470 S1_EF-P_repeat_1 S1_EF 99.5 2.9E-14 6.4E-19 94.4 6.0 51 87-142 1-52 (61)
17 PF01132 EFP: Elongation facto 99.5 3.7E-14 8E-19 92.0 4.9 50 88-142 1-51 (55)
18 cd04469 S1_Hex1 S1_Hex1: Hex1, 99.4 9.7E-13 2.1E-17 90.6 6.4 62 88-150 2-65 (75)
19 cd04463 S1_EF_like S1_EF_like: 99.2 3.8E-11 8.1E-16 77.2 5.6 52 89-148 1-53 (55)
20 cd04467 S1_aIF5A S1_aIF5A: Arc 98.4 7.9E-07 1.7E-11 58.3 5.6 54 86-148 1-55 (57)
21 COG1499 NMD3 NMD protein affec 96.4 0.01 2.3E-07 51.6 7.1 112 10-143 230-346 (355)
22 PF08605 Rad9_Rad53_bind: Fung 75.8 8.2 0.00018 29.2 5.3 53 8-61 42-103 (131)
23 PF05521 Phage_H_T_join: Phage 67.0 29 0.00063 22.7 6.0 33 17-49 52-85 (95)
24 PRK05338 rplS 50S ribosomal pr 62.1 37 0.0008 25.2 6.1 61 23-87 15-86 (116)
25 PF02721 DUF223: Domain of unk 58.2 25 0.00055 24.2 4.6 36 102-139 2-37 (95)
26 smart00466 SRA SET and RING fi 56.3 41 0.00089 26.1 5.8 38 26-65 115-152 (155)
27 smart00676 DM10 Domains in hyp 55.9 11 0.00023 27.1 2.4 29 19-47 66-94 (104)
28 PF13275 S4_2: S4 domain; PDB: 55.6 14 0.0003 24.6 2.7 22 22-43 44-65 (65)
29 CHL00084 rpl19 ribosomal prote 55.5 62 0.0013 24.1 6.4 62 22-87 18-90 (117)
30 PF05096 Glu_cyclase_2: Glutam 53.4 1.1E+02 0.0025 25.7 8.4 90 18-118 37-129 (264)
31 PF01245 Ribosomal_L19: Riboso 52.3 56 0.0012 24.0 5.7 68 22-89 14-88 (113)
32 PF13785 DUF4178: Domain of un 51.4 16 0.00034 26.6 2.7 23 27-49 1-23 (140)
33 cd04480 RPA1_DBD_A_like RPA1_D 48.5 40 0.00087 22.6 4.2 36 102-139 23-58 (86)
34 PF05354 Phage_attach: Phage H 48.3 17 0.00036 27.2 2.4 39 19-60 67-105 (117)
35 PF03829 PTSIIA_gutA: PTS syst 47.4 24 0.00051 26.1 3.1 23 23-45 48-70 (117)
36 PF10665 Minor_capsid_1: Minor 47.0 27 0.00058 25.6 3.3 26 24-49 74-99 (114)
37 PRK10377 PTS system glucitol/s 46.1 28 0.0006 25.9 3.3 22 24-45 49-70 (120)
38 TIGR00849 gutA PTS system, glu 44.8 30 0.00065 25.7 3.3 21 25-45 50-70 (121)
39 TIGR01024 rplS_bact ribosomal 44.5 83 0.0018 23.2 5.6 55 22-78 14-76 (113)
40 PRK11354 kil FtsZ inhibitor pr 41.4 34 0.00073 23.4 2.8 25 18-42 7-31 (73)
41 PF13856 Gifsy-2: ATP-binding 41.2 64 0.0014 22.3 4.4 36 14-49 50-88 (95)
42 PRK11507 ribosome-associated p 39.4 33 0.0007 23.3 2.5 23 21-43 47-69 (70)
43 PF06605 Prophage_tail: Propha 38.9 75 0.0016 26.4 5.3 38 25-64 26-63 (327)
44 KOG4499|consensus 38.3 1.2E+02 0.0027 25.8 6.3 84 6-106 186-279 (310)
45 PF11302 DUF3104: Protein of u 37.5 1.1E+02 0.0024 21.0 5.0 43 26-71 5-60 (75)
46 cd00603 IPT_PCSR IPT domain of 37.4 1.2E+02 0.0026 20.0 6.6 34 11-44 10-46 (90)
47 PF05907 DUF866: Eukaryotic pr 37.2 1E+02 0.0023 23.7 5.4 71 50-120 55-135 (161)
48 TIGR01563 gp16_SPP1 phage head 36.8 1.3E+02 0.0028 20.1 6.5 34 9-42 45-81 (101)
49 PRK13480 3'-5' exoribonuclease 36.6 1.1E+02 0.0023 26.3 5.9 68 22-94 3-74 (314)
50 PF02182 SAD_SRA: SAD/SRA doma 35.0 94 0.002 23.8 4.8 34 30-65 119-152 (155)
51 COG4043 Preprotein translocase 34.6 55 0.0012 24.0 3.2 15 24-38 31-45 (111)
52 COG2501 S4-like RNA binding pr 34.4 47 0.001 22.7 2.7 21 24-44 50-70 (73)
53 PF11871 DUF3391: Domain of un 33.2 25 0.00054 25.1 1.3 21 20-40 3-23 (128)
54 COG3721 HugX Putative heme iro 31.7 73 0.0016 25.1 3.7 60 50-118 93-152 (176)
55 COG3535 Uncharacterized conser 31.6 3.6E+02 0.0079 23.8 10.0 93 30-144 236-329 (357)
56 PF13509 S1_2: S1 domain; PDB: 31.1 75 0.0016 20.2 3.2 35 103-144 17-52 (61)
57 PRK12795 fliM flagellar motor 31.0 1.3E+02 0.0029 26.5 5.7 43 24-67 320-369 (388)
58 COG1098 VacB Predicted RNA bin 30.6 93 0.002 23.6 4.0 29 114-143 32-63 (129)
59 cd01771 Faf1_UBX Faf1 UBX doma 30.0 55 0.0012 22.2 2.5 21 65-85 11-31 (80)
60 cd06409 PB1_MUG70 The MUG70 pr 29.8 88 0.0019 21.9 3.6 46 60-106 3-59 (86)
61 PF07591 PT-HINT: Pretoxin HIN 29.4 77 0.0017 23.3 3.4 27 21-47 71-98 (130)
62 cd01180 IPT_plexin_repeat1 Fir 29.0 1.9E+02 0.0042 19.7 5.9 33 11-43 10-47 (94)
63 cd01767 UBX UBX (ubiquitin reg 28.6 40 0.00087 22.2 1.6 26 56-84 3-28 (77)
64 PF14623 Vint: Hint-domain 27.2 1.2E+02 0.0026 23.8 4.2 44 17-60 13-56 (162)
65 TIGR01397 fliM_switch flagella 26.8 1.3E+02 0.0029 25.1 4.8 31 24-54 271-308 (320)
66 PRK12617 flgA flagellar basal 26.0 3.5E+02 0.0077 21.8 7.5 26 59-84 188-213 (214)
67 PF08408 DNA_pol_B_3: DNA poly 25.9 55 0.0012 25.4 2.1 24 23-46 36-59 (149)
68 KOG1179|consensus 25.7 98 0.0021 29.3 4.0 39 68-112 476-514 (649)
69 PF02590 SPOUT_MTase: Predicte 25.4 1.6E+02 0.0035 22.5 4.6 44 98-146 66-110 (155)
70 PRK10965 multicopper oxidase; 25.3 2.2E+02 0.0048 26.0 6.2 48 28-83 210-257 (523)
71 PF13989 YejG: YejG-like prote 25.1 69 0.0015 23.5 2.4 16 30-45 69-84 (106)
72 COG0090 RplB Ribosomal protein 25.1 2.2E+02 0.0049 24.2 5.7 53 24-80 121-181 (275)
73 PF08806 Sep15_SelM: Sep15/Sel 24.9 82 0.0018 21.5 2.7 29 90-119 34-62 (78)
74 TIGR00307 S8e ribosomal protei 24.8 92 0.002 23.5 3.1 32 19-54 87-118 (127)
75 PF11948 DUF3465: Protein of u 24.3 1.4E+02 0.003 22.7 4.0 39 23-61 82-126 (131)
76 KOG1999|consensus 24.1 2E+02 0.0044 28.7 5.9 78 64-145 397-475 (1024)
77 PRK11835 hypothetical protein; 23.9 75 0.0016 23.6 2.4 27 30-61 72-98 (114)
78 KOG1296|consensus 23.5 2.2E+02 0.0047 22.3 5.0 82 40-121 45-136 (161)
79 PF00467 KOW: KOW motif; Inte 23.2 1.1E+02 0.0025 16.8 2.6 21 29-49 1-26 (32)
80 PLN00208 translation initiatio 23.0 3.4E+02 0.0074 20.9 6.0 77 49-139 4-80 (145)
81 PRK07963 fliN flagellar motor 22.9 1.9E+02 0.0041 22.0 4.5 42 25-67 79-127 (137)
82 PLN02792 oxidoreductase 22.6 2.4E+02 0.0051 26.0 5.9 54 29-87 178-231 (536)
83 COG1326 Uncharacterized archae 22.5 1.1E+02 0.0024 24.8 3.4 41 23-67 71-111 (201)
84 PF01079 Hint: Hint module; I 22.4 1.5E+02 0.0033 24.0 4.2 29 20-48 99-133 (217)
85 PF13144 SAF_2: SAF-like 22.2 3.6E+02 0.0079 20.6 8.0 24 59-82 172-195 (196)
86 cd04709 BAH_MTA BAH, or Bromo 22.0 1.7E+02 0.0037 22.7 4.3 21 26-46 3-26 (164)
87 PF08206 OB_RNB: Ribonuclease 22.0 88 0.0019 19.7 2.2 25 113-142 20-44 (58)
88 PRK06788 flagellar motor switc 22.0 1.9E+02 0.0041 21.5 4.3 43 25-68 53-102 (119)
89 PF08294 TIM21: TIM21; InterP 21.4 3.7E+02 0.008 20.3 6.7 29 36-66 91-119 (145)
90 PF08838 DUF1811: Protein of u 21.2 1.2E+02 0.0025 22.2 2.9 31 19-49 47-77 (102)
91 PF12690 BsuPI: Intracellular 21.0 1.6E+02 0.0036 20.0 3.6 30 56-86 2-31 (82)
92 TIGR03170 flgA_cterm flagella 20.3 3.2E+02 0.0069 19.2 7.9 24 59-82 98-121 (122)
93 PTZ00329 eukaryotic translatio 20.2 4.3E+02 0.0092 20.6 6.3 78 49-140 4-81 (155)
94 TIGR03075 PQQ_enz_alc_DH PQQ-d 20.1 6.2E+02 0.013 23.0 8.1 80 57-138 440-520 (527)
No 1
>PLN03107 eukaryotic translation initiation factor 5A; Provisional
Probab=100.00 E-value=1.6e-49 Score=307.48 Aligned_cols=149 Identities=54% Similarity=0.943 Sum_probs=139.9
Q ss_pred CCCccccccccCCCCcceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCe
Q psy17065 1 MGDIEDAHFETGDSGASTTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHN 80 (150)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ 80 (150)
|++.| ++|+++++++|.|+|+++++||+|++|+++|+||+|++++|+||||||+|++|+++|||+||+++|.+|||+++
T Consensus 1 ~~~~~-~~~~~~~~~~~~t~m~~~~~lKkG~~I~~~g~pc~V~e~~~~KpGKHG~A~vr~k~knl~TG~k~e~~f~s~~~ 79 (159)
T PLN03107 1 MSDEE-HHFESADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHN 79 (159)
T ss_pred CCccc-ccccccccCCCceeccchHhccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEecCCCE
Confidence 77744 89999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecceEEEEeeEEEEeeCCCcEEEecCCCceeeeeecCh--hhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 81 MDVPFVKREDYQLTDISDDGYLSLMGDNGELREDLKLPE--GELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 81 ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~--~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
++.|+|++++|||||+|++++|+|||.+|++|||+.||+ +.|++.++.++.+|.++.|+++++||+|.++
T Consensus 80 ve~~~ve~~~~qyly~dgd~y~~fMD~~get~eqi~v~~~~~el~~~i~~~f~~g~~~~v~v~~~mg~e~i~ 151 (159)
T PLN03107 80 CDVPHVNRTDYQLIDISEDGFVSLMDESGNTKDDLKLPTEDDTLAEQIKDGFDEGKDLVVTVMSAMGEEQIC 151 (159)
T ss_pred EEEEEEEEEEEEEEEEcCCceEEEEcCCCCcceeEEccCcchHHHHHHHHHHhCCCeEEEEEEecCCeEEEE
Confidence 999999999999999995554699997677899999995 6799999999999999999999999999864
No 2
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=100.00 E-value=4.3e-44 Score=277.47 Aligned_cols=149 Identities=48% Similarity=0.830 Sum_probs=141.6
Q ss_pred CCCccccccc--cCCCCcceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCC
Q psy17065 1 MGDIEDAHFE--TGDSGASTTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPST 78 (150)
Q Consensus 1 ~~~~~~~~~~--~~~~~~~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~ 78 (150)
|||+| ++|+ +++|++|.|+|++++.||+|.||+|+|+||+|++++++||||||+|++|+.+.+||||+++|...||+
T Consensus 1 m~d~~-~~f~~~~~~~gas~t~p~q~~~LkkG~yvvIkGrPCKIveistSKtGKHGhAK~~ivaidIFTgkK~edi~Ps~ 79 (166)
T PTZ00328 1 MSDED-HDFSHQGGGDNASKTYPLPAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPST 79 (166)
T ss_pred CCccc-cccccccCCCCCCceecccccceeECCEEEECCeeeEEEEEecCCCCcCCceEEEEEEEecCCCCEEeeecCcc
Confidence 88855 8999 59999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeEecceEEEEeeEEEEeeCC------CcEEEecCCCceeeeeecCh-hhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 79 HNMDVPFVKREDYQLTDISDD------GYLSLMGDNGELREDLKLPE-GELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 79 ~~ve~~~v~~~~~qyly~d~~------~~~~fMdet~e~~Eqi~l~~-~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
+++++|+|+|++||+|.++++ +++.+||++|++.+++.||. +.|+.+++..|.+|.+|.|+++++||+|.+|
T Consensus 80 hnv~VP~V~r~~yqli~I~~d~~~~~~g~v~LMd~~g~~k~dl~lp~~~el~~~ik~~f~~g~ev~v~vi~amG~e~ii 158 (166)
T PTZ00328 80 HNVEVPFVKTFTYSVLDIQPNEDPSLPAHLSLMDDEGESREDLDMPPDAALATQIKEQFDSGKEVLVVVVSAMGTEQVL 158 (166)
T ss_pred ceeEeeeEEeeEEEEEEEcCCCcccccceEEEEcCCCCeeecccCCChhHHHHHHHHHhcCCCeEEEEEEhhCCeeehh
Confidence 999999999999999999855 68999997788899999997 8999999999999999999999999999865
No 3
>TIGR00037 eIF_5A translation initiation factor eIF-5A. Observed in eukaryotes and archaea.
Probab=100.00 E-value=2.8e-43 Score=264.75 Aligned_cols=126 Identities=46% Similarity=0.699 Sum_probs=115.7
Q ss_pred cceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEE
Q psy17065 16 ASTTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTD 95 (150)
Q Consensus 16 ~~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly 95 (150)
++.|+|+++++||+|++|+++|+||+|++++|+||||||+|++|+++|||+||+++|.+|+|+++++.|+|++++|||||
T Consensus 1 ~~~~~~~~~~~irkG~~i~~~g~p~~V~e~~~~kpGkhG~A~vr~k~knl~tG~~~e~~f~s~~~ve~~~ve~~~~qylY 80 (130)
T TIGR00037 1 MSATKQVQVSALRVGGYVVIDGRPCKIVDISTSKPGKHGHAKARVVAIGIFTGKKLEFVSPSTSKVEVPIVDRREYQVLA 80 (130)
T ss_pred CCcceeccHHHccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEEEEEEEE
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 96 ISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 96 ~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
+| |++|+||| +||| |+.||.+. + +.+||++|++ |.++++||+|.++
T Consensus 81 ~d-g~~~~fMd~etye---q~~i~~~~--~-~~~~Lke~~~--V~v~~~~g~~~~~ 127 (130)
T TIGR00037 81 IM-GGMVQLMDLDTYE---TDELPIPE--E-LGDSLEPGFE--VEYIEAMGQEKII 127 (130)
T ss_pred ec-CCEEEEEcCCCcE---EEEecCCh--h-HHHHhhcCCE--EEEEecCCeEEEE
Confidence 98 77899999 7866 55666554 4 4889999997 7789999999764
No 4
>PRK03999 translation initiation factor IF-5A; Provisional
Probab=100.00 E-value=2.6e-40 Score=248.39 Aligned_cols=123 Identities=28% Similarity=0.520 Sum_probs=113.4
Q ss_pred eeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeC
Q psy17065 19 TYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISD 98 (150)
Q Consensus 19 t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~ 98 (150)
..|+++++||+|++|+++|+||+|++++|+||||||+|++|+++|||+||++++.+|+|+++++.|.|++++|||||.|
T Consensus 3 ~~~~~~~~lrkG~~i~~~g~p~~V~~~~~~kpGkhg~a~vr~k~knL~tG~~~e~~~~s~d~~e~~~ve~~~~qylY~d- 81 (129)
T PRK03999 3 KKQVEVGELKEGSYVVIDGEPCKIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVDAKVEVPIIEKKTGQVLSIM- 81 (129)
T ss_pred cccccHHHccCCCEEEECCEEEEEEEEEeecCCCCCcEEEEEEEEECCCCCEEEEEecCCCceeeeeEEeEEEEEEEec-
Confidence 4689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 99 DGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 99 ~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
+++|+||| |||| |+.||.+ ++. +.||++|+. |.+++|||+|.++
T Consensus 82 g~~~~fMd~eTye---q~~i~~~--~d~-~~~l~eg~~--v~v~~~~g~~~~~ 126 (129)
T PRK03999 82 GDVVQLMDLETYE---TFEIPIP--EEL-KDKLEPGVE--VEYWEAMGRRKIM 126 (129)
T ss_pred CCEEEEecCCCce---EEEecCC--hhH-HhhCcCCCE--EEEEhhCCeEEEE
Confidence 67899999 8877 5577766 665 889999996 5599999999864
No 5
>KOG3271|consensus
Probab=100.00 E-value=8.8e-41 Score=252.62 Aligned_cols=148 Identities=70% Similarity=1.134 Sum_probs=141.7
Q ss_pred CCCccccccccCCCCcceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCe
Q psy17065 1 MGDIEDAHFETGDSGASTTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHN 80 (150)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ 80 (150)
|+|+|. +|++++++++.|+|.+++.|||+.+|.++|+||+|++.+.+|+||||+|++++..++||||+++|..+||+++
T Consensus 1 Msd~~~-~Fe~~dagas~t~p~q~salrkNG~vviK~rpckivEmSTsKtGKHGhAKvh~vaidifTgkk~edI~psthn 79 (156)
T KOG3271|consen 1 MSDEEH-RFETGDAGASATYPMQCSALRKNGHVVIKGRPCKIVEMSTSKTGKHGHAKVHIVAIDIFTGKKLEDICPSTHN 79 (156)
T ss_pred CCcccc-ccccCCCcccccccchhhheeeCCEEEEcCCCceEEEeecccCCcCCceEEEEEEEEeecCcccccccCCCCc
Confidence 676554 5999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecceEEEEeeEEEEeeCCCcEEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 81 MDVPFVKREDYQLTDISDDGYLSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 81 ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
+++|+++|.+||++.++ ++++.||+++|++.+++.+|.+.|+++++.-+.+|.++.|+|+++||.|..+
T Consensus 80 ~dVp~vkr~~yqLidIs-d~~~sl~t~sG~~kdDlklp~~el~~~i~~~~e~g~dl~v~Vlsa~gee~~~ 148 (156)
T KOG3271|consen 80 MDVPVVKRVDYQLIDIS-DGYLSLMTDSGETKDDLKLPEGELGNQIRQGFEEGKDLLVTVLSAMGEEAAV 148 (156)
T ss_pred cccCccccceeEEEEec-CCeEEEEcCCCCcchhccCcchhHHHHHHHhhcCCCcEEEEEhhhhCchhhe
Confidence 99999999999999999 7799999988999999999999999999999999999999999999998653
No 6
>COG0231 Efp Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.5e-39 Score=242.31 Aligned_cols=120 Identities=26% Similarity=0.388 Sum_probs=109.8
Q ss_pred eeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCC
Q psy17065 20 YPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDD 99 (150)
Q Consensus 20 ~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~ 99 (150)
.|+++++||+|++|+++|+||+|++++|+|||||| |++|+++|||+||++++.+|+++++++.|.|+++++||||.| |
T Consensus 2 ~~i~~~~lr~G~~i~~dg~~~~V~~~~~~KpGKg~-a~vrvk~k~l~tG~~~e~~f~~~~kve~a~ie~~~~q~lY~d-g 79 (131)
T COG0231 2 AMISASELRKGLYIVIDGEPYVVVEISHVKPGKGG-AFVRVKLKNLFTGKKVEKTFKADDKVEVAIVERKTAQYLYID-G 79 (131)
T ss_pred ceeeHHHccCCCEEEECCeEEEEEEEEEccCCCCC-cEEEEEEEEccCCCEEEEEEcCCCEEEEeEEeeeeEEEEEcC-C
Confidence 58999999999999999999999999999999966 599999999999999999999999999999999999999999 7
Q ss_pred CcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEeccccee
Q psy17065 100 GYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFR 147 (150)
Q Consensus 100 ~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~ 147 (150)
+.|+||| |||| |+.||.+.+++. ..||+||++|.|+ ..+|+.
T Consensus 80 ~~~~FMD~etye---q~~v~~~~~~d~-~~~l~eg~~v~v~--~~~g~~ 122 (131)
T COG0231 80 DFYVFMDLETYE---QYELPKDQIGDA-AKFLKEGMEVEVL--LYNGEP 122 (131)
T ss_pred CeEEEccCCCce---EEEecchhhhhH-HHhcCCCCEEEEE--EECCEE
Confidence 7899999 8865 779999999987 8899999996654 445554
No 7
>PRK12426 elongation factor P; Provisional
Probab=100.00 E-value=7.3e-38 Score=247.48 Aligned_cols=116 Identities=13% Similarity=0.063 Sum_probs=109.6
Q ss_pred eeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCC
Q psy17065 21 PMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDG 100 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~ 100 (150)
|+++++||+|++|+++|+||.|++++|+|||| |+|++|+|+|||.||+++|+||+|+++++.+.++++++||||.| ++
T Consensus 1 m~~~~dik~G~~i~~~g~~~~V~~~~h~kPGk-g~A~vr~klknl~tG~~~e~tf~s~ek~e~a~ve~~~~qylY~d-g~ 78 (185)
T PRK12426 1 MVLSSQLSVGMFISTKDGLYKVVSVSKVTGPK-GETFIKVSLQAADSDVVVERNFKAGQEVKEAQFEPRNLEYLYLE-GD 78 (185)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEecCCC-CceEEEEEEEEcCCCCeEEEEECCCCeEEEeEEEeeEeEEEEEC-CC
Confidence 57899999999999999999999999999999 88999999999999999999999999999999999999999999 66
Q ss_pred cEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 101 YLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 101 ~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
.|+||| +||| |+.||++.||++ ..||+||+.|.|++..
T Consensus 79 ~~~FMd~etye---Qi~i~~~~lgd~-~~fL~e~~~v~v~~~~ 117 (185)
T PRK12426 79 EYLFLDLGNYD---KIYIPKEIMKDN-FLFLKAGVTVSALVYD 117 (185)
T ss_pred eEEEecCCCce---EEEeCHHHhhhH-HhhccCCCEEEEEEEC
Confidence 799999 7755 789999999998 8899999999998763
No 8
>PRK14578 elongation factor P; Provisional
Probab=100.00 E-value=1.3e-36 Score=240.72 Aligned_cols=117 Identities=15% Similarity=0.211 Sum_probs=109.0
Q ss_pred eeeccccccccEEEECCeeEEEEEeeEecCCCC-cccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCC
Q psy17065 21 PMQCSALRKNGFVMLKARPCKIVDMSTSKTGKH-GHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDD 99 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKh-G~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~ 99 (150)
|+++++||+|++|+++|+||+|++++|+||||+ |+|++|+|+|||.||++.|++|+|+++++.|+|+++++||||.| +
T Consensus 1 m~~~~dik~G~~i~~dg~~~~V~~~~~~kpg~~g~~a~vr~klknl~tG~~~e~tf~s~d~ve~a~ve~~~~qylY~d-g 79 (187)
T PRK14578 1 MYTTSDFKKGLVIQLDGAPCLLLDVTFQSPSARGANTMVKTKYRNLLTGQVLEKTFRSGDKVEEADFERHKGQFLYAD-G 79 (187)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEEcCCCCCCceEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEeEeEEEEeC-C
Confidence 578999999999999999999999999999986 46799999999999999999999999999999999999999999 7
Q ss_pred CcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 100 GYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 100 ~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
+.|+||| +||| |+.||++.+|++ ..||+||++|.|++..
T Consensus 80 ~~~~FMD~etyE---Q~~i~~~~~g~~-~~fL~e~~~v~v~~~~ 119 (187)
T PRK14578 80 DRGVFMDLETYE---QFEMEEDAFSAI-APFLLDGTEVQLGLFQ 119 (187)
T ss_pred CEEEEecCCCcE---EEEecHHHhhhH-HhhccCCCEEEEEEEC
Confidence 7799999 7755 779999999997 8899999999998763
No 9
>PRK04542 elongation factor P; Provisional
Probab=100.00 E-value=1.5e-36 Score=240.68 Aligned_cols=117 Identities=14% Similarity=0.146 Sum_probs=109.1
Q ss_pred eeeccccccccEEEECCeeEEEEEeeEecC-CCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCC
Q psy17065 21 PMQCSALRKNGFVMLKARPCKIVDMSTSKT-GKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDD 99 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i~g~P~~V~~~~~~kp-GKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~ 99 (150)
|+++++||+|++|+++|+||+|++++|+|| ||+|+|++|+|+|||.||+++++||+|+++++.+++++++|||||.| +
T Consensus 1 mi~~~dik~G~~i~~~g~~~~V~~~~h~kp~Gkg~~a~vr~klknl~tG~~~e~tfrs~ekve~a~~~~~~~qylY~d-g 79 (189)
T PRK04542 1 MPKANEIKKGMVVEYNGKLLLVKDIDRQSPSGRGGATLYKMRFYDVRTGLKVEERFKGDDILDTVDLTRRPVTFSYID-G 79 (189)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEECCCCCCcceEEEEEEEEcCCCCeEEEEECCCCeEEEEEEEEeEeEEEEeC-C
Confidence 578999999999999999999999999999 79657799999999999999999999999999999999999999999 6
Q ss_pred CcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCe-EEEEEec
Q psy17065 100 GYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKE-LLVSFIF 142 (150)
Q Consensus 100 ~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~-v~v~~~~ 142 (150)
+.|+||| +||| |+.||++.||++ .+||+||+. |.|++..
T Consensus 80 ~~~~FMd~etyE---Q~~i~~~~lgd~-~~~L~e~~~~v~v~~~~ 120 (189)
T PRK04542 80 DEYVFMDNEDYT---PYTFKKDQIEDE-LLFIPEGMPGMQVLTVD 120 (189)
T ss_pred CEEEEecCCCce---EEEECHHHhhhH-hhhhhcCCEEEEEEEEC
Confidence 7799999 7755 789999999997 889999998 9988764
No 10
>TIGR02178 yeiP elongation factor P-like protein YeiP. This model represents the family of Escherichia coli protein YeiP, a close homolog of elongation factor P (TIGR00038) and probably itself a translation factor. Member of this family are found only in some Gammaproteobacteria, including E. coli and Vibrio cholerae.
Probab=100.00 E-value=9e-35 Score=230.08 Aligned_cols=114 Identities=15% Similarity=0.186 Sum_probs=105.6
Q ss_pred ccccccccEEEECCeeEEEEEeeEecCCCCccc-EEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcE
Q psy17065 24 CSALRKNGFVMLKARPCKIVDMSTSKTGKHGHA-KVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYL 102 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A-~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~ 102 (150)
+++||+|++|+++|+||.|++++|+|||++|+| ++|+|+|||.||+++++||+|+++++.++++++++||||.| ++.|
T Consensus 2 ~~~lk~G~~i~~dg~~~~V~~~~~~kpg~~ga~~~vk~klknl~tG~~~e~tf~s~e~ve~a~le~~~~qylY~d-g~~~ 80 (186)
T TIGR02178 2 ASEMKKGSIVEYNGKTLLIKDIQRSSPQGRGGNVRYKFRMYDVPTGSKVEERFKADDMLDTVELLRREASFSYKD-GEEY 80 (186)
T ss_pred cccccCCCEEEECCEEEEEEEEEEECCCCCCCcEEEEEEEeEcCCCCeEEEEECCCCeEEEEEEEEeEeEEEEeC-CCeE
Confidence 789999999999999999999999999885655 89999999999999999999999999999999999999999 6679
Q ss_pred EEec-CCCceeeeeecChhhHHHHHHhhccCCCe-EEEEEec
Q psy17065 103 SLMG-DNGELREDLKLPEGELGAQLRSDYDAGKE-LLVSFIF 142 (150)
Q Consensus 103 ~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~-v~v~~~~ 142 (150)
+||| +||| |+.||++.||++ ..||+||+. |.|++..
T Consensus 81 ~FMD~etyE---Q~~i~~~~lgd~-~~fL~e~~~~v~v~~~~ 118 (186)
T TIGR02178 81 VFMDEEDYT---PYTFDKDAIEDE-LLFISEGLSGMYVQLID 118 (186)
T ss_pred EEccCCCcE---EEEeCHHHhhhh-hhhhhCCCEEEEEEEEC
Confidence 9999 7755 789999999997 889999996 9988763
No 11
>PRK00529 elongation factor P; Validated
Probab=100.00 E-value=9.8e-35 Score=229.57 Aligned_cols=116 Identities=20% Similarity=0.302 Sum_probs=109.1
Q ss_pred eeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCC
Q psy17065 21 PMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDG 100 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~ 100 (150)
|+++++||+|++|+++|+||+|++++|+|||| |+|++|+++|||+||++++.+|+++++++.|.++++++||||.| ++
T Consensus 1 ~~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGk-g~A~vrvk~knL~tG~~~e~~f~~~e~ve~~~ve~~~~q~ly~d-gd 78 (186)
T PRK00529 1 MISANDLRKGLVIEIDGEPYVVLEFEHVKPGK-GQAFVRTKLKNLLTGSVVEKTFKAGDKVERADVERREMQYLYND-GD 78 (186)
T ss_pred CcchhhcCCCCEEEECCEEEEEEEEEEeeCCC-CceEEEEEEEECCCCCeEEEEeCCCCEEEeccEEeEEEEEEEEC-CC
Confidence 57899999999999999999999999999999 89999999999999999999999999999999999999999999 55
Q ss_pred cEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 101 YLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 101 ~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
.|+||| |||| |+.||++.|+++ .+||++|+.|.|+++.
T Consensus 79 ~~~fMD~etye---q~~l~~~~lg~~-~~~L~eg~~v~v~~~~ 117 (186)
T PRK00529 79 GYVFMDTETYE---QIEVPADQVGDA-AKFLKEGMEVTVVFYN 117 (186)
T ss_pred EEEEecCCCce---eeEcCHHHhHHH-HhhccCCCEEEEEEEC
Confidence 699999 7755 779999999997 7899999999998864
No 12
>TIGR00038 efp translation elongation factor P. function: involved in peptide bond synthesis. stimulate efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase (by similarity). The trusted cutoff of this model is set high enough to exclude members of TIGR02178, an EFP-like protein of certain Gammaproteobacteria.
Probab=100.00 E-value=2.6e-34 Score=226.87 Aligned_cols=115 Identities=23% Similarity=0.322 Sum_probs=108.0
Q ss_pred eeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCc
Q psy17065 22 MQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGY 101 (150)
Q Consensus 22 i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~ 101 (150)
+++++||+|++|+++|+||+|++++|+|||| |+|++|+++|||+||++++++|+++++++.+.++++++||||.| ++.
T Consensus 1 ~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGk-g~A~~rvk~knL~tG~~~e~~f~~~~kve~~~~e~~~~q~ly~d-gd~ 78 (184)
T TIGR00038 1 ISANDLRKGLVIELDGEPYVVLEFEHVKPGK-GQAFVRVKLKNLLTGKVLEKTFRSGEKVEKADVEEREMQYLYKD-GDS 78 (184)
T ss_pred CchhhccCCCEEEECCEEEEEEEEEEeeCCC-CceEEEEEEEECCCCCEEEEEeCCCCEEEcccEEeEEEEEEEEC-CCE
Confidence 4789999999999999999999999999999 88999999999999999999999999999999999999999999 556
Q ss_pred EEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 102 LSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 102 ~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
|+||| +||| |+.||++.|++. ..||+||++|.|++..
T Consensus 79 ~~fMD~etye---q~~i~~~~l~~~-~~~L~eg~~v~v~~~~ 116 (184)
T TIGR00038 79 YVFMDTETYE---QIELPKDLLGDA-AKFLKENMEVSVTFYN 116 (184)
T ss_pred EEEeCCCCcc---ceEcCHHHHHHH-HhhcCCCCEEEEEEEC
Confidence 99999 7755 779999999997 8899999999998864
No 13
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=99.86 E-value=1.5e-21 Score=128.04 Aligned_cols=58 Identities=28% Similarity=0.374 Sum_probs=53.4
Q ss_pred eccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeE
Q psy17065 23 QCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNM 81 (150)
Q Consensus 23 ~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~v 81 (150)
+|++||+|++|+++|+||.|++++|++||| |+|++++++|||.||+++|.+|+|+|+|
T Consensus 1 sa~dlr~G~~i~~~g~~~~V~~~~~~k~gk-g~a~v~~klknl~tG~~~e~tf~s~d~v 58 (58)
T PF08207_consen 1 SASDLRKGMVIEIDGEPYVVLDFQHVKPGK-GGAFVRVKLKNLRTGSKVEKTFRSGDKV 58 (58)
T ss_dssp EGGG--TTSEEEETTEEEEEEEEEEECCTT-SSSEEEEEEEETTTTEEEEEEEETT-EE
T ss_pred CHHHccCCCEEEECCEEEEEEEEEEECCCC-CCeEEEEEEEECCCCCEEEEEECCCCcC
Confidence 589999999999999999999999999999 8899999999999999999999999986
No 14
>PF01287 eIF-5a: Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; InterPro: IPR020189 A five-stranded beta-barrel was first noted as a common structure among four proteins binding single-stranded nucleic acids (staphylococcal nuclease and aspartyl-tRNA synthetase) or oligosaccharides (B subunits of enterotoxin and verotoxin-1), and has been termed the oligonucleotide/oligosaccharide binding motif, or OB fold, a five-stranded beta-sheet coiled to form a closed beta-barrel capped by an alpha helix located between the third and fourth strands []. Two ribosomal proteins, S17 and S1, are members of this class, and have different variations of the OB fold theme. Comparisons with other OB fold nucleic acid binding proteins suggest somewhat different mechanisms of nucleic acid recognition in each case []. There are many nucleic acid-binding proteins that contain domains with this OB-fold structure, including anticodon-binding tRNA synthetases, ssDNA-binding proteins (CDC13, telomere-end binding proteins), phage ssDNA-binding proteins (gp32, gp2.5, gpV), cold shock proteins, DNA ligases, RNA-capping enzymes, DNA replication initiators and RNA polymerase subunit RBP8 []. This entry represents the RNA-binding domain of translation elongation factor IF5A [].; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0043022 ribosome binding, 0006452 translational frameshifting, 0045901 positive regulation of translational elongation, 0045905 positive regulation of translational termination; PDB: 1IZ6_B 3CPF_A 1KHI_A 1BKB_A 1XTD_A 3ER0_A 3HKS_B 1X6O_A 2EIF_A 1EIF_A.
Probab=99.65 E-value=9.5e-16 Score=104.07 Aligned_cols=66 Identities=50% Similarity=0.882 Sum_probs=60.9
Q ss_pred eEEEEeeEEEEeeCCCcEEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 85 FVKREDYQLTDISDDGYLSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 85 ~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
+|+|++||++.+++++++.+||++|+++|++.||...|+++++..|.+|.++.|++++|||+|.+|
T Consensus 1 ~V~r~eyqli~I~~Dg~lsLMde~get~eDl~lP~~el~~ei~~~~~~g~~~~Vtv~~amG~e~ii 66 (69)
T PF01287_consen 1 IVKRKEYQLIDIDGDGFLSLMDEDGETREDLKLPDGELGEEIKAKFEEGKEVLVTVLSAMGEEKII 66 (69)
T ss_dssp -EEEEEEEEEEEETTTEEEEEETTS-EEEEEECCSHHHHHHHHHHHHTTCEEEEEEEEETTEEEEE
T ss_pred CeEEEEEEEEEEccCcEEEEEcCCCCeeccEEecccchhHHHHhhccCCCeEEEEEEeeCCcEEEE
Confidence 479999999999977799999999999999999999999999999999999999999999999875
No 15
>cd04468 S1_eIF5A S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=99.57 E-value=5.2e-15 Score=100.44 Aligned_cols=64 Identities=55% Similarity=0.928 Sum_probs=60.7
Q ss_pred EEEEeeEEEEeeCCCcEEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceeeeC
Q psy17065 86 VKREDYQLTDISDDGYLSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRYCI 150 (150)
Q Consensus 86 v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~~~ 150 (150)
|.|++||+++++ ++|+++|+++|+++|++.||.+.|+.+|+..|.+|.++.|+|++|||+|.+|
T Consensus 1 V~R~eYqLidI~-dGflsLm~e~G~~k~DlklP~~elg~~I~~~f~~gk~~~vtV~samGeE~~i 64 (69)
T cd04468 1 VKRTEYQLIDID-DGFLSLMDDDGETREDLKLPEGELGKEIREKFDEGKDVLVTVLSAMGEEQAV 64 (69)
T ss_pred CcceeEEEEeec-CCeEEEEcCCCCcccCCcCCcHHHHHHHHHHHhCCCcEEEEEEccCCcEeeE
Confidence 468999999999 5999999999999999999999999999999999999999999999999875
No 16
>cd04470 S1_EF-P_repeat_1 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=99.51 E-value=2.9e-14 Score=94.35 Aligned_cols=51 Identities=22% Similarity=0.321 Sum_probs=45.1
Q ss_pred EEEeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 87 KREDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 87 ~~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
+++++||||.| |+.|+||| +||| |+.||++.+|++ .+||+||+.|.|++..
T Consensus 1 e~~~~qylY~d-g~~~~FMd~etye---Q~~i~~~~igd~-~~~L~e~~~v~v~~~~ 52 (61)
T cd04470 1 EEREMQYLYKD-GDNYVFMDTETYE---QIELPKEALGDA-AKFLKEGMEVIVLFYN 52 (61)
T ss_pred CCceEEEEEeC-CCEEEEeCCCCce---EEEECHHHhhhH-HhhCcCCCEEEEEEEC
Confidence 47899999999 66799999 7754 889999999997 8899999999998864
No 17
>PF01132 EFP: Elongation factor P (EF-P) OB domain; InterPro: IPR001059 Elongation factor P (EF-P) is a prokaryotic protein translation factor required for efficient peptide bond synthesis on 70S ribosomes from fMet-tRNAfMet []. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase. This entry reresents the central domain of elongation factor P and its homologues. It forms an oligonucleotide-binding (OB) fold, though it is not clear if this region is involved in binding nucleic acids [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation; PDB: 1YBY_A 3A5Z_H 3TRE_A 1UEB_B 3HUW_V 3HUY_V 3OYY_B.
Probab=99.49 E-value=3.7e-14 Score=92.03 Aligned_cols=50 Identities=22% Similarity=0.305 Sum_probs=41.4
Q ss_pred EEeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 88 REDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 88 ~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
+|++||||.| ++.|+||| +||| |+.||++.+|++ .+||+||+.|.|++..
T Consensus 1 ~r~~qylY~d-gd~~~FMd~etye---Qi~v~~~~~g~~-~~~L~eg~~v~v~~~~ 51 (55)
T PF01132_consen 1 RREMQYLYKD-GDNYVFMDTETYE---QIEVPKDQLGDA-LKFLKEGMEVQVLFYE 51 (55)
T ss_dssp EEEEEEEEEE-SSEEEEEETTT-----EEEEEHHHHTTT-GCC--TTEEEEEEEET
T ss_pred CceEEEEEeC-CCEEEEecCCCce---EEEecHHHhChH-HhhCcCCCEEEEEEEC
Confidence 6899999999 66699999 8855 889999999987 8999999999998864
No 18
>cd04469 S1_Hex1 S1_Hex1: Hex1, S1-like RNA-binding domain. Hex1 protein is the major component of the Woronin body in filamentous fungi. The Woronin body is a dense vesicle and plays a vital role in filamentous fungi cell integrity. When cell damage occurs, Woronin bodies seal the septal pore to prevent further cytoplasmic bleeding. Hex1 protein self-assembles to form the solid core of the Woronin body vesicle. The Hex1 sequence and structure are similar to eukaryotic initiation factor 5A (eIF5A), suggesting they share a common ancestor during evolution. All members of the EF superfamily to which Hex1 belongs, contain an S1 domain, which has been shown to bind RNA or single-stranded DNA and often interacts with the ribosome.
Probab=99.39 E-value=9.7e-13 Score=90.64 Aligned_cols=62 Identities=19% Similarity=0.389 Sum_probs=58.3
Q ss_pred EEeeEEEEeeCCCcEEEecCCCceeeeeecC-hhhHHHHHHhhccCCC-eEEEEEecccceeeeC
Q psy17065 88 REDYQLTDISDDGYLSLMGDNGELREDLKLP-EGELGAQLRSDYDAGK-ELLVSFIFLLLFRYCI 150 (150)
Q Consensus 88 ~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~-~~~lgd~~~~~l~eg~-~v~v~~~~~~g~~~~~ 150 (150)
.++||+++++ ++++.+||++|++++++.|| .+.|+.+|+.-|.+|. ++.|+|++|||+|.+|
T Consensus 2 ~~eYqLidI~-DG~lsLM~e~G~~kdDl~lP~~~~l~~~I~~~f~~gk~~v~VtVlsAmGeE~iv 65 (75)
T cd04469 2 FKQYRVLDIQ-DGSIVAMTETGDVKQGLPVIDQSNLWTRLKTAFESGRGSVRVLVVNDGGRELVV 65 (75)
T ss_pred ceEEEEEEec-CCeEEEEcCCCCcccCccCCCcchHHHHHHHHHHCCCCcEEEEEEccCCeEeEE
Confidence 3689999995 89999999999999999999 8999999999999999 9999999999999875
No 19
>cd04463 S1_EF_like S1_EF_like: EF-like, S1-like RNA-binding domain. The EF-like superfamily contains the bacterial translation elongation factor P and its archeal and eukaryotic homologs, aIF5A and eIF5A. All proteins in this superfamily contain an S1 domain, which binds RNA or single-stranded DNA and often interacts with the ribosome. Hex-1, the SI-like domain of which is also found in this group, is structurally homologous to eIF5A and might have evolved from an ancestral eIF5A through gene duplication.
Probab=99.20 E-value=3.8e-11 Score=77.23 Aligned_cols=52 Identities=17% Similarity=0.152 Sum_probs=41.8
Q ss_pred EeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceee
Q psy17065 89 EDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRY 148 (150)
Q Consensus 89 ~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~ 148 (150)
|++||||.| ++.++||| +||| |+.+|++.+ +. ..||++|+.|.|.+. .|+..
T Consensus 1 ~~~qylY~d-g~~~~fMd~etye---q~~v~~~~~-~~-~~~l~eg~~v~v~~~--~g~~i 53 (55)
T cd04463 1 RELQVLDIQ-GSKPVTMDLETYE---VVQVPPPVD-QS-FESFEPGEVVLVDTR--TGQYV 53 (55)
T ss_pred CCEEEEEcC-CCEeEEecCCCce---EEEeCHHHh-hH-HhhCCCCCEEEEEEE--CCEEE
Confidence 579999999 77899999 7866 679999875 44 889999999888754 56543
No 20
>cd04467 S1_aIF5A S1_aIF5A: Archaeal translation Initiation Factor 5A (aIF5A), S1-like RNA-binding domain. aIF5A is a homolog of eukaryotic eIF5A. IF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is a post-translationally modified lysine and is essential for IF5A function. In yeast, eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the cold-shock domain which binds RNA. Moreover, IF5A prefers binding to the actively translating ribosome. This evidence suggests that IF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=98.40 E-value=7.9e-07 Score=58.32 Aligned_cols=54 Identities=22% Similarity=0.337 Sum_probs=43.7
Q ss_pred EEEEeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecccceee
Q psy17065 86 VKREDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLLLFRY 148 (150)
Q Consensus 86 v~~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~g~~~ 148 (150)
++||..|.++.+ ++.+.+|| |||++| ++.+|.+ ++.-+++|.+|. ++.+||+.-
T Consensus 1 i~k~~aqVisi~-g~~vQlMD~eTYeT~-ev~~p~~-----~~~~i~~G~eV~--y~~~~g~~k 55 (57)
T cd04467 1 IERKTGQVLSIM-GDVVQLMDLETYETF-EVPIPEE-----IKDKLEPGKEVE--YWESMGKRK 55 (57)
T ss_pred CcceEEEEEEEc-CCEEEEeccccceeE-EEecchh-----hcccCCCCCEEE--EEeecCeEe
Confidence 579999999999 66799999 999988 7777722 234478999877 899999874
No 21
>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]
Probab=96.45 E-value=0.01 Score=51.60 Aligned_cols=112 Identities=20% Similarity=0.224 Sum_probs=77.5
Q ss_pred ccCCCCcceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEe----cce
Q psy17065 10 ETGDSGASTTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMD----VPF 85 (150)
Q Consensus 10 ~~~~~~~~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve----~~~ 85 (150)
+.|-.-.-+|+-+-.-+++||++|.++|.++.++.. -|+ | +.++|+.|++..+.++.-...-+ .+.
T Consensus 230 ~tgk~~yR~t~Svrip~~~~gDiV~~~~~~~~~v~~----~~~-~-----~~~~dl~t~e~~~~~~~~~~~~~~~~~~~~ 299 (355)
T COG1499 230 FTGKRVYRFTYSVRIPEFRPGDIVSVRGRQLVLVRS----IGK-G-----IVVLDLETGEPVEITWSVYKRNEGKVAVKE 299 (355)
T ss_pred CCCceEEEEEEEEECCCCCCCCEEEECCCeEEEEEE----ecC-c-----eEEEecccCCccccChhhcccCcceeeecc
Confidence 355555667899999999999999999977766643 344 4 88999999988887764433333 222
Q ss_pred EEEEeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEecc
Q psy17065 86 VKREDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFL 143 (150)
Q Consensus 86 v~~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~ 143 (150)
=+-+.+.++..+ .+...||| +|||.+ .+... -+.+|.+|.+..+..
T Consensus 300 ~~~~~~~vvs~~-~~~~~v~d~et~e~~---~~~~~--------~~~~g~~v~v~~~~~ 346 (355)
T COG1499 300 PRLKKAVVVSRD-PSAIQVLDPETYEAR---TVKGP--------SLEEGDEVKVFKVRG 346 (355)
T ss_pred ccceEEEEEecC-CCceEEEecceEEEE---eccCC--------CCCCCCEEEEEEEec
Confidence 222567777777 55689999 887765 44322 356888887766643
No 22
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=75.76 E-value=8.2 Score=29.15 Aligned_cols=53 Identities=17% Similarity=0.191 Sum_probs=38.2
Q ss_pred ccccCCCCcceeeeeeccccccccEEEECCe--eEEEEEeeEec--CC-----CCcccEEEEE
Q psy17065 8 HFETGDSGASTTYPMQCSALRKNGFVMLKAR--PCKIVDMSTSK--TG-----KHGHAKVHMV 61 (150)
Q Consensus 8 ~~~~~~~~~~~t~~i~~~~ikkG~~i~i~g~--P~~V~~~~~~k--pG-----KhG~A~v~~k 61 (150)
.|+.+..... ..-+-.=|||.|+.|.+++. +|.|+-+.+.- +. -+|.+.|.+|
T Consensus 42 ~Fedg~~~i~-~~dv~~LDlRIGD~Vkv~~~k~~yiV~Gl~~~~~~~~~~i~cirGy~tV~Lk 103 (131)
T PF08605_consen 42 RFEDGTYEIK-NEDVKYLDLRIGDTVKVDGPKVTYIVVGLECKISSEDNIITCIRGYNTVYLK 103 (131)
T ss_pred EEecCceEeC-cccEeeeeeecCCEEEECCCCccEEEEEeeecCCCCCCceEEcCCCcEEEEE
Confidence 6777763333 34467779999999999998 89999988872 22 1277777774
No 23
>PF05521 Phage_H_T_join: Phage head-tail joining protein ; InterPro: IPR008767 This entry describes the head-tail adaptor protein of bacteriophage SPP1 and related proteins in other bacteriophage and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg7 (RCAP_rcc01689) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2KCA_A 2KZ4_A.
Probab=66.97 E-value=29 Score=22.73 Aligned_cols=33 Identities=3% Similarity=0.179 Sum_probs=21.7
Q ss_pred ceeeeeecc-ccccccEEEECCeeEEEEEeeEec
Q psy17065 17 STTYPMQCS-ALRKNGFVMLKARPCKIVDMSTSK 49 (150)
Q Consensus 17 ~~t~~i~~~-~ikkG~~i~i~g~P~~V~~~~~~k 49 (150)
+....+--. +|..++.|.++|..|.|..+....
T Consensus 52 t~~~~iR~~~~I~~~~ri~~~g~~y~I~~i~~~~ 85 (95)
T PF05521_consen 52 THRFTIRYRKDITPDMRIKYDGKVYNIKSIDPDD 85 (95)
T ss_dssp EEEEEECS-TTSSTTEEEEECTEEEEE-S--EE-
T ss_pred EEEEEEecCcCCCcceEEEECCEEEEEEEECCCC
Confidence 344444444 599999999999999999876654
No 24
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=62.07 E-value=37 Score=25.19 Aligned_cols=61 Identities=20% Similarity=0.206 Sum_probs=38.5
Q ss_pred eccccccccEEEE-----CCeeEEE-----EEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCC-eEecceEE
Q psy17065 23 QCSALRKNGFVML-----KARPCKI-----VDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTH-NMDVPFVK 87 (150)
Q Consensus 23 ~~~~ikkG~~i~i-----~g~P~~V-----~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~-~ve~~~v~ 87 (150)
...+++.|++|.+ +|....+ +-+... ++ | .--.+.+|++..|--+|.+|+-.. .++.+.|.
T Consensus 15 ~~p~f~~GD~V~V~~~i~eg~k~R~q~f~GvvI~~~--~~-G-~~~tftvRki~~gvGVEr~fpl~SP~I~~IeV~ 86 (116)
T PRK05338 15 DIPEFRPGDTVRVHVKVVEGNKERIQAFEGVVIARR--GR-G-LNETFTVRKISYGVGVERTFPLHSPRIDSIEVV 86 (116)
T ss_pred CCCCcCCCCEEEEEEEEccCCceEeccEEEEEEEEe--CC-C-CCceEEEEEcccCccEEEEecCCCCcccEEEEE
Confidence 4678899998876 4553333 222222 22 2 344589999999999999998633 44444443
No 25
>PF02721 DUF223: Domain of unknown function DUF223; InterPro: IPR003871 The function of this domain has not been characterised, but may be involved in nucleic acid or nucleotide binding.
Probab=58.16 E-value=25 Score=24.20 Aligned_cols=36 Identities=14% Similarity=0.368 Sum_probs=28.4
Q ss_pred EEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEE
Q psy17065 102 LSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVS 139 (150)
Q Consensus 102 ~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~ 139 (150)
++++||.|+.. |..+|.+.+. ..+..|+||.-+.+.
T Consensus 2 mvL~De~G~~I-~A~I~~~~~~-~f~~~l~Eg~~y~i~ 37 (95)
T PF02721_consen 2 MVLVDEKGDKI-QATIPKELVD-KFKDSLKEGSWYTIS 37 (95)
T ss_pred EEEEecCCCEE-EEEECHHHHH-HHHhhcccCCEEEeE
Confidence 57999889877 8889987765 468889999876553
No 26
>smart00466 SRA SET and RING finger associated domain. Domain of unknown function in SET domain containing proteins and in Deinococcus radiodurans DRA1533. Domain in SET domain containing proteins and in Deinococcus radiodurans DRA1533.
Probab=56.28 E-value=41 Score=26.05 Aligned_cols=38 Identities=18% Similarity=0.171 Sum_probs=28.3
Q ss_pred ccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEc
Q psy17065 26 ALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDI 65 (150)
Q Consensus 26 ~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl 65 (150)
.-+++..+.+|| +|+|+++-. .+|++|....+.+|+-+
T Consensus 115 ~~~p~~gyrYDG-LY~V~~~w~-e~g~~G~~v~kfkL~R~ 152 (155)
T smart00466 115 KYAPGKGYIYDG-LYRIVDYWR-EVGKSGFLVFKFKLVRI 152 (155)
T ss_pred CCCCCCeEEECc-EEEEEEEEE-ecCCCCcEEEEEEEEeC
Confidence 345677778866 899998844 45777888889988765
No 27
>smart00676 DM10 Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases.
Probab=55.91 E-value=11 Score=27.13 Aligned_cols=29 Identities=17% Similarity=0.126 Sum_probs=25.6
Q ss_pred eeeeeccccccccEEEECCeeEEEEEeeE
Q psy17065 19 TYPMQCSALRKNGFVMLKARPCKIVDMST 47 (150)
Q Consensus 19 t~~i~~~~ikkG~~i~i~g~P~~V~~~~~ 47 (150)
....+..||..|..|.+.|.++.|+++..
T Consensus 66 ~~~y~~~Dl~vG~~v~i~gr~f~I~d~D~ 94 (104)
T smart00676 66 PEYYHASDLNVGTTINVFGRQFRIYDCDE 94 (104)
T ss_pred cCccCHHHcCCCCEEEEeCEEEEEEECCH
Confidence 45688899999999999999999999853
No 28
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=55.55 E-value=14 Score=24.64 Aligned_cols=22 Identities=18% Similarity=0.305 Sum_probs=14.8
Q ss_pred eeccccccccEEEECCeeEEEE
Q psy17065 22 MQCSALRKNGFVMLKARPCKIV 43 (150)
Q Consensus 22 i~~~~ikkG~~i~i~g~P~~V~ 43 (150)
-....|++|++|.++|..++|+
T Consensus 44 rrg~Kl~~GD~V~~~~~~~~Vv 65 (65)
T PF13275_consen 44 RRGKKLRPGDVVEIDGEEYRVV 65 (65)
T ss_dssp -SS----SSEEEEETTEEEEEE
T ss_pred ccCCcCCCCCEEEECCEEEEEC
Confidence 3446799999999999999885
No 29
>CHL00084 rpl19 ribosomal protein L19
Probab=55.51 E-value=62 Score=24.05 Aligned_cols=62 Identities=11% Similarity=0.084 Sum_probs=38.4
Q ss_pred eeccccccccEEEE-----CCe-----eEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCC-eEecceEE
Q psy17065 22 MQCSALRKNGFVML-----KAR-----PCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTH-NMDVPFVK 87 (150)
Q Consensus 22 i~~~~ikkG~~i~i-----~g~-----P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~-~ve~~~v~ 87 (150)
....++++|++|.+ +|. ++.=+-+... |+ | .--.+.+|++..|--+|.+|+-.. .++.+.|-
T Consensus 18 ~~~p~f~~GDtV~V~~~i~eg~k~R~q~F~GvvI~~r--~~-G-~~~tftvRki~~gvGVEr~fpl~SP~I~~IeV~ 90 (117)
T CHL00084 18 KNLPKIRVGDTVKVGVLIQEGNKERVQFYEGTVIAKK--NS-G-LNTTITVRKVFQGIGVERVFLLHSPKLASIEVL 90 (117)
T ss_pred cCCCccCCCCEEEEEEEEecCCeeEeceEEEEEEEEe--CC-C-CCeeEEEEEeccCccEEEEEecCCCccceEEEE
Confidence 35678999998875 444 2322223322 33 3 334589999999999999998633 34433333
No 30
>PF05096 Glu_cyclase_2: Glutamine cyclotransferase; InterPro: IPR007788 This family of enzymes 2.3.2.5 from EC catalyse the cyclization of free L-glutamine and N-terminal glutaminyl residues in proteins to pyroglutamate (5-oxoproline) and pyroglutamyl residues respectively []. This family includes plant and bacterial enzymes and seems unrelated to the mammalian enzymes.; PDB: 3NOK_B 2FAW_A 2IWA_A 3NOM_A 3NOL_A 3MBR_X.
Probab=53.35 E-value=1.1e+02 Score=25.69 Aligned_cols=90 Identities=17% Similarity=0.193 Sum_probs=46.8
Q ss_pred eeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEe--cceEEEEeeEEEE
Q psy17065 18 TTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMD--VPFVKREDYQLTD 95 (150)
Q Consensus 18 ~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve--~~~v~~~~~qyly 95 (150)
.++|-+.+.+-.|..+.-+|..|. .+|.-|++.+| -.|+.||+.....--...-|- ...+..+-+|+.+
T Consensus 37 ~~ypHd~~aFTQGL~~~~~g~LyE-------STG~yG~S~l~--~~d~~tg~~~~~~~l~~~~FgEGit~~~d~l~qLTW 107 (264)
T PF05096_consen 37 ETYPHDPTAFTQGLEFLDDGTLYE-------STGLYGQSSLR--KVDLETGKVLQSVPLPPRYFGEGITILGDKLYQLTW 107 (264)
T ss_dssp EEEE--TT-EEEEEEEEETTEEEE-------EECSTTEEEEE--EEETTTSSEEEEEE-TTT--EEEEEEETTEEEEEES
T ss_pred EECCCCCcccCccEEecCCCEEEE-------eCCCCCcEEEE--EEECCCCcEEEEEECCccccceeEEEECCEEEEEEe
Confidence 356778888888988878888774 45666765544 568889888755432222111 1233344455555
Q ss_pred eeCCCcEEEec-CCCceeeeeecC
Q psy17065 96 ISDDGYLSLMG-DNGELREDLKLP 118 (150)
Q Consensus 96 ~d~~~~~~fMd-et~e~~Eqi~l~ 118 (150)
.+ +- .+.-| +|++...+++.+
T Consensus 108 k~-~~-~f~yd~~tl~~~~~~~y~ 129 (264)
T PF05096_consen 108 KE-GT-GFVYDPNTLKKIGTFPYP 129 (264)
T ss_dssp SS-SE-EEEEETTTTEEEEEEE-S
T ss_pred cC-Ce-EEEEccccceEEEEEecC
Confidence 44 21 12334 444444444444
No 31
>PF01245 Ribosomal_L19: Ribosomal protein L19; InterPro: IPR001857 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L19 is one of the proteins from the large ribosomal subunit [, ]. In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface [] and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3HUZ_T 3V2D_T 3I8I_R 2XG2_T 2V49_T 2XUX_T 3HUX_T 3I9C_R 3V25_T 3UZ2_R ....
Probab=52.34 E-value=56 Score=23.97 Aligned_cols=68 Identities=13% Similarity=0.065 Sum_probs=39.8
Q ss_pred eeccccccccEEEE-----CCeeEEEEEeeEecCCCCc-ccEEEEEEEEcccCcEEEEeecCCC-eEecceEEEE
Q psy17065 22 MQCSALRKNGFVML-----KARPCKIVDMSTSKTGKHG-HAKVHMVGLDIFSGKKYEDICPSTH-NMDVPFVKRE 89 (150)
Q Consensus 22 i~~~~ikkG~~i~i-----~g~P~~V~~~~~~kpGKhG-~A~v~~k~knl~TG~~~e~t~~s~~-~ve~~~v~~~ 89 (150)
.+..+++.|++|.+ +|....+-.++-.--++++ ..--.+.+||++.|--+|.+|+-.. .++.+.|-++
T Consensus 14 ~~~p~f~~GD~v~V~~~i~e~~k~r~q~f~GvvIa~~~~g~~ssftlR~~~~g~gVE~~f~l~SP~I~~IeV~~~ 88 (113)
T PF01245_consen 14 KDIPEFRVGDTVRVTYKISEGNKERIQVFEGVVIARRRRGLNSSFTLRNISQGVGVERVFPLYSPLIKSIEVLRR 88 (113)
T ss_dssp SSSSSSSSSSEEEEEEEEESSSSEEEEEEEEEEEEEEBSSTSSEEEEEEEETTEEEEEEEETTSTTEEEEEEEEE
T ss_pred cCCCCcCCCCEEEEEEEEecCCCceeEEEEEEEEEEECCCCCeeEEEEEEecCccEEEEEEcCCCCeEEEEEEEe
Confidence 45678899998765 2433333322222111111 1223578899999999999998643 4555555443
No 32
>PF13785 DUF4178: Domain of unknown function (DUF4178)
Probab=51.36 E-value=16 Score=26.59 Aligned_cols=23 Identities=4% Similarity=0.099 Sum_probs=19.5
Q ss_pred cccccEEEECCeeEEEEEeeEec
Q psy17065 27 LRKNGFVMLKARPCKIVDMSTSK 49 (150)
Q Consensus 27 ikkG~~i~i~g~P~~V~~~~~~k 49 (150)
|++|+.+.++|.+|.|+-...-+
T Consensus 1 L~~G~~~~~~g~~~~ViG~~~~~ 23 (140)
T PF13785_consen 1 LQLGDIGRIDGKDYTVIGRIQYD 23 (140)
T ss_pred CCCCCEEEECCeEEEEEEEEEEE
Confidence 68999999999999998665544
No 33
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.
Probab=48.49 E-value=40 Score=22.60 Aligned_cols=36 Identities=19% Similarity=0.325 Sum_probs=28.1
Q ss_pred EEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEE
Q psy17065 102 LSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVS 139 (150)
Q Consensus 102 ~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~ 139 (150)
++|.||.|+.. +..+|.+.+. ....-|+||..+.+.
T Consensus 23 miL~De~G~~I-~a~i~~~~~~-~f~~~L~eg~vy~is 58 (86)
T cd04480 23 MVLVDEKGNRI-HATIPKRLAA-KFRPLLKEGKWYTIS 58 (86)
T ss_pred EEEEcCCCCEE-EEEECHHHHH-hhhhhceeCCEEEEe
Confidence 57888888867 7888988765 458889999887765
No 34
>PF05354 Phage_attach: Phage Head-Tail Attachment; InterPro: IPR008018 This entry is represented by Bacteriophage lambda, FII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The phage head-tail attachment protein is required for the joining of phage heads and tails at the last step of morphogenesis [].; GO: 0042963 phage assembly, 0019028 viral capsid; PDB: 2KX4_A 1K0H_A.
Probab=48.33 E-value=17 Score=27.16 Aligned_cols=39 Identities=8% Similarity=0.167 Sum_probs=24.9
Q ss_pred eeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEE
Q psy17065 19 TYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHM 60 (150)
Q Consensus 19 t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~ 60 (150)
...-.+..||+++.+.+.|++|.|-+ +.|--+|...+.+
T Consensus 67 v~t~dv~~L~r~DtL~I~g~~y~Vd~---v~pD~~G~t~I~L 105 (117)
T PF05354_consen 67 VRTADVSGLKRRDTLTIGGESYWVDR---VGPDGGGSTRIWL 105 (117)
T ss_dssp ESCCCCCTS-TT-EEEETTTEEEBS------SSSSS-CCEEB
T ss_pred EEehHhhhhhcCCeEEECCEEEEEEe---eccCCCccEEEEe
Confidence 45567889999999999999999854 4574456555443
No 35
>PF03829 PTSIIA_gutA: PTS system glucitol/sorbitol-specific IIA component; InterPro: IPR004716 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria. The system in Escherichia coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2F9H_A.
Probab=47.41 E-value=24 Score=26.08 Aligned_cols=23 Identities=4% Similarity=0.166 Sum_probs=16.1
Q ss_pred eccccccccEEEECCeeEEEEEe
Q psy17065 23 QCSALRKNGFVMLKARPCKIVDM 45 (150)
Q Consensus 23 ~~~~ikkG~~i~i~g~P~~V~~~ 45 (150)
...+|++|+.+.+++..|.|..+
T Consensus 48 ~~~~i~~Gd~l~i~~~~y~ItaV 70 (117)
T PF03829_consen 48 LKGDIKPGDTLIIGGQEYTITAV 70 (117)
T ss_dssp GG----TT-EEEETTEEEEEEEE
T ss_pred ccCCcCCCCEEEECCeEEEEEEE
Confidence 45679999999999999999876
No 36
>PF10665 Minor_capsid_1: Minor capsid protein; InterPro: IPR019612 This entry is represented by Bacteriophage A118, Gp9. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a putative tail-knob protein from Listeria phage A118.
Probab=47.02 E-value=27 Score=25.62 Aligned_cols=26 Identities=0% Similarity=0.185 Sum_probs=22.9
Q ss_pred ccccccccEEEECCeeEEEEEeeEec
Q psy17065 24 CSALRKNGFVMLKARPCKIVDMSTSK 49 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~P~~V~~~~~~k 49 (150)
+-++++|+.|.++|..|.|.++...-
T Consensus 74 ~~~~~~~skI~fdG~ey~V~~v~~~y 99 (114)
T PF10665_consen 74 FPDFTEGSKIVFDGKEYTVTKVNPNY 99 (114)
T ss_pred ccccCCCCEEEECCceEEEEEEEecc
Confidence 45888999999999999999988774
No 37
>PRK10377 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional
Probab=46.11 E-value=28 Score=25.85 Aligned_cols=22 Identities=14% Similarity=0.034 Sum_probs=19.8
Q ss_pred ccccccccEEEECCeeEEEEEe
Q psy17065 24 CSALRKNGFVMLKARPCKIVDM 45 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~P~~V~~~ 45 (150)
..+|++|+.+.+++.-|+|..+
T Consensus 49 ~~~i~~Gd~l~i~~~~Y~ItaV 70 (120)
T PRK10377 49 KGALQPGLQFELGQHRYPVTAV 70 (120)
T ss_pred cCccCCCCEEEECCEEEEEEEE
Confidence 4669999999999999999876
No 38
>TIGR00849 gutA PTS system, glucitol/sorbitol-specific IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria.The system in E.Coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.
Probab=44.84 E-value=30 Score=25.73 Aligned_cols=21 Identities=10% Similarity=0.230 Sum_probs=19.1
Q ss_pred cccccccEEEECCeeEEEEEe
Q psy17065 25 SALRKNGFVMLKARPCKIVDM 45 (150)
Q Consensus 25 ~~ikkG~~i~i~g~P~~V~~~ 45 (150)
.+|++|+.+.+++.-|+|..+
T Consensus 50 ~~i~~Gd~l~i~~~~Y~ItaV 70 (121)
T TIGR00849 50 GTLKPGQVFMIGGIAYPVTAV 70 (121)
T ss_pred CCcCCCCEEEECCEEEEEEEE
Confidence 479999999999999999876
No 39
>TIGR01024 rplS_bact ribosomal protein L19, bacterial type. This model describes bacterial ribosomoal protein L19 and its chloroplast equivalent. Putative mitochondrial L19 are found in several species (but not Saccharomyces cerevisiae) and score between trusted and noise cutoffs.
Probab=44.46 E-value=83 Score=23.20 Aligned_cols=55 Identities=18% Similarity=0.175 Sum_probs=34.4
Q ss_pred eeccccccccEEEE-----CCeeEEEEEeeEe---cCCCCcccEEEEEEEEcccCcEEEEeecCC
Q psy17065 22 MQCSALRKNGFVML-----KARPCKIVDMSTS---KTGKHGHAKVHMVGLDIFSGKKYEDICPST 78 (150)
Q Consensus 22 i~~~~ikkG~~i~i-----~g~P~~V~~~~~~---kpGKhG~A~v~~k~knl~TG~~~e~t~~s~ 78 (150)
.+..+++.|++|.+ +|....+-.++-. +-++ | .--.+.+|++..|--+|.+|+..
T Consensus 14 ~~ip~f~~GD~v~V~~~i~eg~k~R~q~f~GvvI~~~~~-G-~~~tftvR~i~~gvGVEr~fpl~ 76 (113)
T TIGR01024 14 KDLPDFRVGDTVRVHVKIVEGKKERIQVFEGVVIARRGG-G-IGETFTVRKISYGVGVERIFPLH 76 (113)
T ss_pred cCCCccCCCCEEEEEEEEccCCceEcccEEEEEEEEeCC-C-CceEEEEEEeccCccEEEEEEcC
Confidence 45678899998877 3332222112111 1133 2 34458999999999999999863
No 40
>PRK11354 kil FtsZ inhibitor protein; Reviewed
Probab=41.40 E-value=34 Score=23.43 Aligned_cols=25 Identities=12% Similarity=0.174 Sum_probs=21.8
Q ss_pred eeeeeeccccccccEEEECCeeEEE
Q psy17065 18 TTYPMQCSALRKNGFVMLKARPCKI 42 (150)
Q Consensus 18 ~t~~i~~~~ikkG~~i~i~g~P~~V 42 (150)
.|.+++-..+.+|+.++.+|+-|..
T Consensus 7 GT~~v~Rq~V~PG~~v~~~grty~A 31 (73)
T PRK11354 7 GTDEIPRQCVTPGDYVLHEGRTYIA 31 (73)
T ss_pred CceeecccccCCceEEEEcCcEEEE
Confidence 3677888899999999999999974
No 41
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=41.18 E-value=64 Score=22.33 Aligned_cols=36 Identities=11% Similarity=0.202 Sum_probs=22.3
Q ss_pred CCcceeeeeeccccc---cccEEEECCeeEEEEEeeEec
Q psy17065 14 SGASTTYPMQCSALR---KNGFVMLKARPCKIVDMSTSK 49 (150)
Q Consensus 14 ~~~~~t~~i~~~~ik---kG~~i~i~g~P~~V~~~~~~k 49 (150)
++...+..+..++++ +|+.|.++|+-|.|.++..--
T Consensus 50 ~g~~~~L~v~~~d~~~P~~gd~v~~dG~~y~V~~~~~~~ 88 (95)
T PF13856_consen 50 EGTQPTLYVFSSDYPKPRRGDRVVIDGESYTVTRFQEED 88 (95)
T ss_dssp ----EEEEE--SS-----TT-EEEETTEEEEEEEEEEET
T ss_pred cCCceEEEEEcCCCCCCCCCCEEEECCeEEEEeEEecCC
Confidence 445556666666654 899999999999999887653
No 42
>PRK11507 ribosome-associated protein; Provisional
Probab=39.45 E-value=33 Score=23.31 Aligned_cols=23 Identities=9% Similarity=0.119 Sum_probs=18.5
Q ss_pred eeeccccccccEEEECCeeEEEE
Q psy17065 21 PMQCSALRKNGFVMLKARPCKIV 43 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i~g~P~~V~ 43 (150)
.--.-.|++|++|.++|.-+.|+
T Consensus 47 ~rRgkKl~~GD~V~~~g~~~~v~ 69 (70)
T PRK11507 47 TRKRCKIVAGQTVSFAGHSVQVV 69 (70)
T ss_pred cccCCCCCCCCEEEECCEEEEEe
Confidence 33456799999999999988875
No 43
>PF06605 Prophage_tail: Prophage endopeptidase tail; InterPro: IPR010572 This entry is represented by the Bacteriophage 53, Orf003. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 3GS9_A.
Probab=38.89 E-value=75 Score=26.43 Aligned_cols=38 Identities=8% Similarity=0.292 Sum_probs=23.1
Q ss_pred cccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEE
Q psy17065 25 SALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLD 64 (150)
Q Consensus 25 ~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~kn 64 (150)
.-|.++.+|.++|+.|.|..+....-|. + ..+.+.+++
T Consensus 26 ~~i~~~~~I~~~~q~y~I~~~~~~~~~~-~-~~~~V~a~h 63 (327)
T PF06605_consen 26 DLIKEENIITYDGQEYRIKQVEKSRDGN-T-ITITVTAEH 63 (327)
T ss_dssp --SSTT-EEEETTEEEE--EE--B-------EEEEEEEEB
T ss_pred HhcCcCCEEEECCeEEEEEEeEEecCCC-E-EEEEEEEEe
Confidence 5688999999999999999888765554 3 348999999
No 44
>KOG4499|consensus
Probab=38.33 E-value=1.2e+02 Score=25.80 Aligned_cols=84 Identities=15% Similarity=0.100 Sum_probs=57.4
Q ss_pred ccccccCCCCcceeeeeecccccc----------ccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEee
Q psy17065 6 DAHFETGDSGASTTYPMQCSALRK----------NGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDIC 75 (150)
Q Consensus 6 ~~~~~~~~~~~~~t~~i~~~~ikk----------G~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~ 75 (150)
+|++++|+.+.. -..-+||| |+.|--+|.+|.-+ -..|+ +..-|+.||+.....-
T Consensus 186 dyd~~tG~~snr----~~i~dlrk~~~~e~~~PDGm~ID~eG~L~Va~----~ng~~-------V~~~dp~tGK~L~eik 250 (310)
T KOG4499|consen 186 DYDCPTGDLSNR----KVIFDLRKSQPFESLEPDGMTIDTEGNLYVAT----FNGGT-------VQKVDPTTGKILLEIK 250 (310)
T ss_pred ecCCCcccccCc----ceeEEeccCCCcCCCCCCcceEccCCcEEEEE----ecCcE-------EEEECCCCCcEEEEEE
Confidence 345667776655 23344555 99998888888532 23343 6667999999987766
Q ss_pred cCCCeEecceEEEEeeEEEEeeCCCcEEEec
Q psy17065 76 PSTHNMDVPFVKREDYQLTDISDDGYLSLMG 106 (150)
Q Consensus 76 ~s~~~ve~~~v~~~~~qyly~d~~~~~~fMd 106 (150)
-...++-..-+--+++..+|.. .. --|||
T Consensus 251 lPt~qitsccFgGkn~d~~yvT-~a-a~~~d 279 (310)
T KOG4499|consen 251 LPTPQITSCCFGGKNLDILYVT-TA-AKFDD 279 (310)
T ss_pred cCCCceEEEEecCCCccEEEEE-eh-hcccC
Confidence 6688888777777888888876 22 23677
No 45
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=37.50 E-value=1.1e+02 Score=21.05 Aligned_cols=43 Identities=9% Similarity=0.175 Sum_probs=25.2
Q ss_pred ccccccEEEECCee------------EEEEEeeEecCCC-CcccEEEEEEEEcccCcEE
Q psy17065 26 ALRKNGFVMLKARP------------CKIVDMSTSKTGK-HGHAKVHMVGLDIFSGKKY 71 (150)
Q Consensus 26 ~ikkG~~i~i~g~P------------~~V~~~~~~kpGK-hG~A~v~~k~knl~TG~~~ 71 (150)
.+|+|++++++..+ ..|+.+ ..|. ...+---+..-|+-||.+.
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~---~ggaR~P~~~tlFQVadVDtG~I~ 60 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHC---EGGARDPKVPTLFQVADVDTGVIR 60 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEE---eccccCCCCCceEEEEEccCCeEE
Confidence 47999999998876 444444 3332 1223333555666666554
No 46
>cd00603 IPT_PCSR IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the macrophage-stimulating receptors and of fibrocystin. Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT_PCSR domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=37.36 E-value=1.2e+02 Score=19.96 Aligned_cols=34 Identities=24% Similarity=0.391 Sum_probs=27.7
Q ss_pred cCCCCcceeeeeeccccccc---cEEEECCeeEEEEE
Q psy17065 11 TGDSGASTTYPMQCSALRKN---GFVMLKARPCKIVD 44 (150)
Q Consensus 11 ~~~~~~~~t~~i~~~~ikkG---~~i~i~g~P~~V~~ 44 (150)
.|-...-+...|..++|..+ ..|.+++.+|.++.
T Consensus 10 ~g~~~Ggt~vtI~G~~f~~~~~~~~V~ig~~~C~~~~ 46 (90)
T cd00603 10 SGPLSGGTRLTITGSNLGSGSPRVRVTVGGVPCKVLN 46 (90)
T ss_pred CCCCCCCeEEEEEEECCCCCCceEEEEECCEECcEEe
Confidence 44455567889999999988 78999999999974
No 47
>PF05907 DUF866: Eukaryotic protein of unknown function (DUF866); InterPro: IPR008584 This family consists of a number of hypothetical eukaryotic proteins of unknown function with an average length of around 165 residues.; PDB: 1ZSO_B.
Probab=37.24 E-value=1e+02 Score=23.75 Aligned_cols=71 Identities=23% Similarity=0.236 Sum_probs=38.1
Q ss_pred CCCCcccEEEEEEEE--------cccCcEEEEee-cCCCeEecceEEEEeeEEEEeeCCCcEEEec-CCCceeeeeecCh
Q psy17065 50 TGKHGHAKVHMVGLD--------IFSGKKYEDIC-PSTHNMDVPFVKREDYQLTDISDDGYLSLMG-DNGELREDLKLPE 119 (150)
Q Consensus 50 pGKhG~A~v~~k~kn--------l~TG~~~e~t~-~s~~~ve~~~v~~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~ 119 (150)
||-+|.|-.-+|.|. |..++....+. .++....++.++.|-++.+.....+.|..-- ++|..|++|.|.+
T Consensus 55 ~gsrG~aNfv~KCk~C~re~si~i~~~~~~~~~~e~~~~~~~i~~fdCRG~e~~~f~p~~~~~~~~~esG~~f~~vdL~e 134 (161)
T PF05907_consen 55 PGSRGTANFVMKCKFCKRESSIDIIPGKGKPYTAEDSGKFVPILAFDCRGLEPVEFSPRGGWVAVSVESGTKFEDVDLSE 134 (161)
T ss_dssp TTSS-EESEEE--SSSS--EEEEEE--TTTEEEGGGTTS-EEEEEEEEESEEEEEE---S-EEEEET-TS-EEEEE--TT
T ss_pred CCCccceEeEecCcCcCCccEEEEEecCccccccccccCCceEEEEECCCcEeEEEecCCcEEEEEecCCCEEEeccCCC
Confidence 333366655555543 33333222332 3556788999999999999999555566666 7999999999886
Q ss_pred h
Q psy17065 120 G 120 (150)
Q Consensus 120 ~ 120 (150)
+
T Consensus 135 ~ 135 (161)
T PF05907_consen 135 G 135 (161)
T ss_dssp S
T ss_pred C
Confidence 4
No 48
>TIGR01563 gp16_SPP1 phage head-tail adaptor, putative, SPP1 family. This family describes a small protein of about 100 amino acids found in bacteriophage and in bacterial prophage regions. Examples include gp9 of phage HK022 and gp16 of phage SPP1. This minor structural protein is suggested to be a head-tail adaptor protein (although the source of this annotation was not traced during construction of this model).
Probab=36.80 E-value=1.3e+02 Score=20.13 Aligned_cols=34 Identities=18% Similarity=0.259 Sum_probs=24.2
Q ss_pred cccCCCCcceeeeee---ccccccccEEEECCeeEEE
Q psy17065 9 FETGDSGASTTYPMQ---CSALRKNGFVMLKARPCKI 42 (150)
Q Consensus 9 ~~~~~~~~~~t~~i~---~~~ikkG~~i~i~g~P~~V 42 (150)
|+.+..++..+..+. ..+|...+.|.++|..|.|
T Consensus 45 ~~a~~~~~~~t~~~~iR~~~~i~~~~ri~~~g~~Y~I 81 (101)
T TIGR01563 45 YRAGQEGVEITHVILIRYRKDVTNKMRVIYDGRIYTI 81 (101)
T ss_pred eecccccCceEEEEEEeccCCCChhhEEEECCEEEEE
Confidence 344445555555443 5678899999999999999
No 49
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=36.60 E-value=1.1e+02 Score=26.29 Aligned_cols=68 Identities=10% Similarity=-0.013 Sum_probs=46.1
Q ss_pred eeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCC----eEecceEEEEeeEEE
Q psy17065 22 MQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTH----NMDVPFVKREDYQLT 94 (150)
Q Consensus 22 i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~----~ve~~~v~~~~~qyl 94 (150)
...++++.|..+.- +|.|.+.+... .|.|+.+.++.+.| .||...-+.+...+ .++.-.+.+...+..
T Consensus 3 ~~i~~l~~g~~v~~---~~lv~~~~~~~-~knG~~yl~l~l~D-~tG~I~ak~W~~~~~~~~~~~~g~vv~v~G~v~ 74 (314)
T PRK13480 3 KGIEELEVGEQVDH---FLLIKSATKGV-ASNGKPFLTLILQD-KSGDIEAKLWDVSPEDEATYVPETIVHVKGDII 74 (314)
T ss_pred chHhhcCCCCEeeE---EEEEEEceeee-cCCCCeEEEEEEEc-CCcEEEEEeCCCChhhHhhcCCCCEEEEEEEEE
Confidence 36788999986543 78887776554 45587999999999 89998877776543 233333444444444
No 50
>PF02182 SAD_SRA: SAD/SRA domain; InterPro: IPR003105 This domain has been termed SRA-YDG, for SET and Ring finger Associated, and because of the conserved YDG motif within the domain. Further characteristics of the domain are the conservation of up to 13 evenly spaced glycine residues and a VRV(I/V)RG motif. The domain is mainly found in plants and animals and in bacteria. In animals, this domain is associated with the Np95-like ring finger protein and the related gene product Np97, which contains PHD and RING FINGER domains and which is an important determinant in cell cycle progression. Np95 is a chromatin-associated ubiquitin ligase, binding to histones is direct and shows a remarkable preference for histone H3 and its N-terminal tail. The SRA-YDG domain contained in Np95 is indispensable both for the interaction with histones and for chromatin binding in vivo [, ]. In plants the SRA-YDG domain is associated with the SET domain, found in a family of histone methyl transferases, and in bacteria it is found in association with HNH, a non-specific nuclease motif [, ].; GO: 0042393 histone binding; PDB: 2ZO1_B 2ZKD_A 2ZO0_B 2ZKF_A 2ZKG_B 3FDE_A 3F8I_A 2ZO2_B 3F8J_B 2ZKE_A ....
Probab=34.97 E-value=94 Score=23.81 Aligned_cols=34 Identities=21% Similarity=0.274 Sum_probs=24.9
Q ss_pred ccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEc
Q psy17065 30 NGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDI 65 (150)
Q Consensus 30 G~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl 65 (150)
+..+.+|| +|+|+++...+ |+.|...++++|+-+
T Consensus 119 ~g~yrYDG-LY~V~~~w~~~-g~~G~~v~kF~L~R~ 152 (155)
T PF02182_consen 119 GGIYRYDG-LYKVVKYWREK-GKSGFKVFKFKLVRL 152 (155)
T ss_dssp SS-EEEEE-EEEEEEEEEEE--TTSSEEEEEEEEE-
T ss_pred CCCEEeCc-EEEEEEEEEEe-CCCCcEEEEEEEEEC
Confidence 44578887 99999998775 455778889998765
No 51
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.56 E-value=55 Score=24.02 Aligned_cols=15 Identities=0% Similarity=0.182 Sum_probs=12.4
Q ss_pred ccccccccEEEECCe
Q psy17065 24 CSALRKNGFVMLKAR 38 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~ 38 (150)
--.||+|+.|+++|.
T Consensus 31 rr~ik~GD~IiF~~~ 45 (111)
T COG4043 31 RRQIKPGDKIIFNGD 45 (111)
T ss_pred hcCCCCCCEEEEcCC
Confidence 346899999999974
No 52
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=34.40 E-value=47 Score=22.75 Aligned_cols=21 Identities=19% Similarity=0.310 Sum_probs=18.2
Q ss_pred ccccccccEEEECCeeEEEEE
Q psy17065 24 CSALRKNGFVMLKARPCKIVD 44 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~P~~V~~ 44 (150)
.-.|+.|+.|.+.|.++.|..
T Consensus 50 gkKlr~gd~V~i~~~~~~v~~ 70 (73)
T COG2501 50 GKKLRDGDVVEIPGQRYQVVA 70 (73)
T ss_pred CCEeecCCEEEECCEEEEEEe
Confidence 457899999999999999875
No 53
>PF11871 DUF3391: Domain of unknown function (DUF3391); InterPro: IPR021812 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is typically between 122 to 139 amino acids in length. This domain is found associated with PF01966 from PFAM.
Probab=33.20 E-value=25 Score=25.08 Aligned_cols=21 Identities=14% Similarity=0.153 Sum_probs=17.0
Q ss_pred eeeeccccccccEEEECCeeE
Q psy17065 20 YPMQCSALRKNGFVMLKARPC 40 (150)
Q Consensus 20 ~~i~~~~ikkG~~i~i~g~P~ 40 (150)
-.|++++|++||+|.--..+|
T Consensus 3 kkI~v~~L~~GM~V~~~~~~w 23 (128)
T PF11871_consen 3 KKIPVDQLKPGMYVSRLDRSW 23 (128)
T ss_pred eEEEHHHCCCCcEEEecCCCc
Confidence 468999999999998765555
No 54
>COG3721 HugX Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=31.69 E-value=73 Score=25.14 Aligned_cols=60 Identities=23% Similarity=0.383 Sum_probs=39.4
Q ss_pred CCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEecCCCceeeeeecC
Q psy17065 50 TGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMGDNGELREDLKLP 118 (150)
Q Consensus 50 pGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~ 118 (150)
.|.|++..+.+.+|+=..|...-..+..-.-++.|..-+..+. +.||+..|+..-.|.|-
T Consensus 93 ~G~~~hGyfNL~gk~~l~GHiK~eNcs~Ialv~rpFmG~~s~s---------i~Ffn~~G~~mfKiylg 152 (176)
T COG3721 93 SGTHRHGYFNLRGKDGLSGHIKAENCSHIALVERPFMGMESAS---------ILFFNAQGEAMFKIYLG 152 (176)
T ss_pred CCccccceEeecCCCCCcceeeccccceeeEeccccCCcccee---------eeeecccCceeeeeeec
Confidence 4899999999999999999888776666555666655444433 44555333333355554
No 55
>COG3535 Uncharacterized conserved protein [Function unknown]
Probab=31.64 E-value=3.6e+02 Score=23.77 Aligned_cols=93 Identities=16% Similarity=0.284 Sum_probs=62.2
Q ss_pred ccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEec-CC
Q psy17065 30 NGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMG-DN 108 (150)
Q Consensus 30 G~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMd-et 108 (150)
|.+++++|..-.|..-. ..|- ....+++.+.+-.+|++.+..|.- +-.+-+++-|++-.- -+-..+.| +|
T Consensus 236 ~g~~lf~Gki~dV~R~t--~gGF-~~G~~~I~G~~~~~g~t~~i~FqN-----Efl~a~~~G~~l~~~-PDLI~lld~~T 306 (357)
T COG3535 236 GGKILFKGKIVDVKRET--RGGF-ARGRVTIDGLEEYRGSTLEIAFQN-----EFLVAEKDGKILATT-PDLIVLLDLNT 306 (357)
T ss_pred CcEEEEccEEEEEEEee--ecce-eeeeEEEechhhcCCceEEEEEEe-----eeeEEecCCcEEEec-CceEEEEecCC
Confidence 46788888765554332 2221 223567888888999999999974 344556888999888 66678899 77
Q ss_pred CceeeeeecChhhHHHHHHhhccCCCeEEEEEeccc
Q psy17065 109 GELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLL 144 (150)
Q Consensus 109 ~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~ 144 (150)
+- ++.. +-|+-|+.|.|.-+-+.
T Consensus 307 g~-----piTT--------e~lkyG~rV~V~aIP~~ 329 (357)
T COG3535 307 GL-----PITT--------ESLKYGQRVVVIAIPAP 329 (357)
T ss_pred CC-----ccch--------HHhhcCcEEEEEEecCc
Confidence 54 3332 23567888888776543
No 56
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=31.06 E-value=75 Score=20.23 Aligned_cols=35 Identities=20% Similarity=0.356 Sum_probs=20.2
Q ss_pred EEec-CCCceeeeeecChhhHHHHHHhhccCCCeEEEEEeccc
Q psy17065 103 SLMG-DNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIFLL 144 (150)
Q Consensus 103 ~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~~~ 144 (150)
+|++ ..+ .++.||...+... ++.|+.|.|.+.-.-
T Consensus 17 ~fL~~~~~---~~vlLp~~e~~~~----~~~Gd~v~VFvY~D~ 52 (61)
T PF13509_consen 17 YFLDDGEG---KEVLLPKSEVPEP----LKVGDEVEVFVYLDK 52 (61)
T ss_dssp EEEEETT----EEEEEEGGG----------TTSEEEEEEEE-T
T ss_pred EEEECCCC---CEEEechHHcCCC----CCCCCEEEEEEEECC
Confidence 4666 432 3779998876433 789999999887543
No 57
>PRK12795 fliM flagellar motor switch protein FliM; Reviewed
Probab=30.98 E-value=1.3e+02 Score=26.45 Aligned_cols=43 Identities=19% Similarity=0.276 Sum_probs=28.0
Q ss_pred ccccccccEEEECC---eeEEE----EEeeEecCCCCcccEEEEEEEEccc
Q psy17065 24 CSALRKNGFVMLKA---RPCKI----VDMSTSKTGKHGHAKVHMVGLDIFS 67 (150)
Q Consensus 24 ~~~ikkG~~i~i~g---~P~~V----~~~~~~kpGKhG~A~v~~k~knl~T 67 (150)
.-+|++|++|.++- .|..| ...-..+||++| ..+-+++.....
T Consensus 320 lL~LkvGDVI~Ld~~~~~~v~v~v~g~p~F~g~~G~~~-g~~AvrI~~~l~ 369 (388)
T PRK12795 320 VLNLKVGDTLMLDARPDALVTLRCGDVPLTEGRMGRVG-DRVAVRVEKPLR 369 (388)
T ss_pred HhCCCCCCEEEeCCCCCCCEEEEECCEEEEEEEeccCC-CEEEEEEEeecC
Confidence 34789999999984 35554 345567899876 355555555443
No 58
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=30.56 E-value=93 Score=23.58 Aligned_cols=29 Identities=17% Similarity=0.352 Sum_probs=21.9
Q ss_pred eeecCh---hhHHHHHHhhccCCCeEEEEEecc
Q psy17065 114 DLKLPE---GELGAQLRSDYDAGKELLVSFIFL 143 (150)
Q Consensus 114 qi~l~~---~~lgd~~~~~l~eg~~v~v~~~~~ 143 (150)
=|.+++ ..+. .|.++|..|++|.|.|++.
T Consensus 32 LVHISEIa~~fVk-dI~d~L~vG~eV~vKVl~i 63 (129)
T COG1098 32 LVHISEIADGFVK-DIHDHLKVGQEVKVKVLDI 63 (129)
T ss_pred eEEehHhhhhhHH-hHHHHhcCCCEEEEEEEee
Confidence 456665 3454 4799999999999999863
No 59
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=30.00 E-value=55 Score=22.25 Aligned_cols=21 Identities=19% Similarity=0.088 Sum_probs=17.7
Q ss_pred cccCcEEEEeecCCCeEecce
Q psy17065 65 IFSGKKYEDICPSTHNMDVPF 85 (150)
Q Consensus 65 l~TG~~~e~t~~s~~~ve~~~ 85 (150)
+=+|+..+++|++++++..+.
T Consensus 11 lP~G~r~~rrF~~t~~L~~l~ 31 (80)
T cd01771 11 TPSGDFLERRFLGDTPLQVLL 31 (80)
T ss_pred CCCCCEEEEEeCCCCcHHHHH
Confidence 566999999999999998543
No 60
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=29.85 E-value=88 Score=21.91 Aligned_cols=46 Identities=15% Similarity=0.166 Sum_probs=26.9
Q ss_pred EEEEEcccCcEEEEeecCCCeEec-----------ceEEEEeeEEEEeeCCCcEEEec
Q psy17065 60 MVGLDIFSGKKYEDICPSTHNMDV-----------PFVKREDYQLTDISDDGYLSLMG 106 (150)
Q Consensus 60 ~k~knl~TG~~~e~t~~s~~~ve~-----------~~v~~~~~qyly~d~~~~~~fMd 106 (150)
+|+++. .|+++-.++.+++.+.. .......++..|.|+++.++.+.
T Consensus 3 FK~~~~-~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 3 FKFKDP-KGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLIT 59 (86)
T ss_pred EEeeCC-CCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEe
Confidence 344444 56666666654444431 11114578889998666677777
No 61
>PF07591 PT-HINT: Pretoxin HINT domain; InterPro: IPR011451 This entry represents a cluster of homologous proteins identified in Leptospira interrogans. One member (Q8EZX6 from SWISSPROT) has been predicted to be a phenazine biosynthesis family protein.; PDB: 2JNQ_A 2JMZ_A.
Probab=29.44 E-value=77 Score=23.32 Aligned_cols=27 Identities=4% Similarity=0.075 Sum_probs=15.6
Q ss_pred eeeccccccccEEEE-CCeeEEEEEeeE
Q psy17065 21 PMQCSALRKNGFVML-KARPCKIVDMST 47 (150)
Q Consensus 21 ~i~~~~ikkG~~i~i-~g~P~~V~~~~~ 47 (150)
-+.|.+|++|+.|.- +|.+..|.++..
T Consensus 71 Wv~A~~L~~GD~L~~~~G~~~~v~~i~~ 98 (130)
T PF07591_consen 71 WVEAEDLKVGDRLLTADGSWVTVTSIRR 98 (130)
T ss_dssp -EEGGG--TTSEEEEE-SSEEEEE----
T ss_pred hhhHhhCCCCCEEEcCCCCEEEEEEEEe
Confidence 688999999998855 788777766654
No 62
>cd01180 IPT_plexin_repeat1 First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=29.01 E-value=1.9e+02 Score=19.73 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=27.5
Q ss_pred cCCCCcceeeeeeccccccc-----cEEEECCeeEEEE
Q psy17065 11 TGDSGASTTYPMQCSALRKN-----GFVMLKARPCKIV 43 (150)
Q Consensus 11 ~~~~~~~~t~~i~~~~ikkG-----~~i~i~g~P~~V~ 43 (150)
.|-....+..+|...+|-.+ ..|.+.|.||.++
T Consensus 10 ~Gp~~GGT~vTI~G~nl~~~~~~~~~~V~ig~~~C~i~ 47 (94)
T cd01180 10 SGPLEGGTRLTICGSNLGLRKNDVRHGVRVGGVPCNPE 47 (94)
T ss_pred CCCCCCCEEEEEEEEcCCCCcccceeEEEECCEECccc
Confidence 45555677899999999998 4699999999997
No 63
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=28.56 E-value=40 Score=22.20 Aligned_cols=26 Identities=27% Similarity=0.308 Sum_probs=19.6
Q ss_pred cEEEEEEEEcccCcEEEEeecCCCeEecc
Q psy17065 56 AKVHMVGLDIFSGKKYEDICPSTHNMDVP 84 (150)
Q Consensus 56 A~v~~k~knl~TG~~~e~t~~s~~~ve~~ 84 (150)
+.+++++ -+|+.+..+|++++++..+
T Consensus 3 t~i~iRl---pdG~~~~~~F~~~~tl~~l 28 (77)
T cd01767 3 TKIQIRL---PDGKRLEQRFNSTHKLSDV 28 (77)
T ss_pred EEEEEEc---CCCCEEEEEeCCCCCHHHH
Confidence 3455554 4599999999999998754
No 64
>PF14623 Vint: Hint-domain
Probab=27.22 E-value=1.2e+02 Score=23.81 Aligned_cols=44 Identities=16% Similarity=0.179 Sum_probs=28.0
Q ss_pred ceeeeeeccccccccEEEECCeeEEEEEeeEecCCCCcccEEEE
Q psy17065 17 STTYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHM 60 (150)
Q Consensus 17 ~~t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~ 60 (150)
+.+.++.+.+||+|+.+.--..|-+|.-+-..+-...+..++++
T Consensus 13 ~~~~~v~i~~lR~G~~V~tp~G~r~V~~Vlkt~v~~~~~~lc~v 56 (162)
T PF14623_consen 13 SGRAPVRIDDLRAGDKVWTPRGPRKVAAVLKTPVESGSEDLCRV 56 (162)
T ss_pred cCceeEEHHHccCCCEEECCCCCeEEEEEEEEeecCCceEEEEE
Confidence 34455899999999999876667666554444332213455555
No 65
>TIGR01397 fliM_switch flagellar motor switch protein FliM. Members of this family are the flagellar motor switch protein FliM. The family excludes FliM homologs that lack an N-terminal region critical to interaction with phosphorylated CheY. One set lacking this N-terminal region is found in Rhizobium meliloti, in which the direction of flagellar rotation is not reversible (i.e. the FliM homolog does not act to reverse the motor direction), and in related species. Another is found in Buchnera, an obligate intracellular endosymbiont with genes for many of the components of the flagellar apparatus, but not, apparently, for flagellin iself.
Probab=26.83 E-value=1.3e+02 Score=25.07 Aligned_cols=31 Identities=13% Similarity=0.183 Sum_probs=20.3
Q ss_pred ccccccccEEEEC---CeeEEEE----EeeEecCCCCc
Q psy17065 24 CSALRKNGFVMLK---ARPCKIV----DMSTSKTGKHG 54 (150)
Q Consensus 24 ~~~ikkG~~i~i~---g~P~~V~----~~~~~kpGKhG 54 (150)
.-+|++|++|.++ ++|..|. .+-+.++|+++
T Consensus 271 ll~L~~GDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~ 308 (320)
T TIGR01397 271 LLNLQVGDVIPLNTDMPEEVSLRVGGRPKFRAQPGVRG 308 (320)
T ss_pred HhCCCCCCEEEeCCCCCCcEEEEECCEEEEEEEEEEEC
Confidence 3578999999998 3566652 24445666654
No 66
>PRK12617 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=25.97 E-value=3.5e+02 Score=21.80 Aligned_cols=26 Identities=12% Similarity=0.045 Sum_probs=21.6
Q ss_pred EEEEEEcccCcEEEEeecCCCeEecc
Q psy17065 59 HMVGLDIFSGKKYEDICPSTHNMDVP 84 (150)
Q Consensus 59 ~~k~knl~TG~~~e~t~~s~~~ve~~ 84 (150)
.++.||+.||++++-+..+.-.|++.
T Consensus 188 ~IrVrN~~SgrvV~g~V~~~G~V~V~ 213 (214)
T PRK12617 188 RVSVENSSSRRVVQGIVEASGTVVVS 213 (214)
T ss_pred EEEEEECCCCCEEEEEEeCCcEEEEe
Confidence 68889999999999888887777653
No 67
>PF08408 DNA_pol_B_3: DNA polymerase family B viral insert; InterPro: IPR013617 This viral domain is found between the exonuclease domain of the DNA polymerase family B (IPR006133 from INTERPRO) and the IPR006134 from INTERPRO domain, connecting the two. ; GO: 0003887 DNA-directed DNA polymerase activity
Probab=25.90 E-value=55 Score=25.38 Aligned_cols=24 Identities=17% Similarity=0.329 Sum_probs=19.8
Q ss_pred eccccccccEEEECCeeEEEEEee
Q psy17065 23 QCSALRKNGFVMLKARPCKIVDMS 46 (150)
Q Consensus 23 ~~~~ikkG~~i~i~g~P~~V~~~~ 46 (150)
=..=|+-|.+|.+++.+|+|++=.
T Consensus 36 F~~VL~TgNYitI~d~v~kI~~K~ 59 (149)
T PF08408_consen 36 FSEVLSTGNYITINDDVYKILDKD 59 (149)
T ss_pred HHHHHhcCCeEEECCeeeeeeccc
Confidence 345588999999999999998653
No 68
>KOG1179|consensus
Probab=25.66 E-value=98 Score=29.27 Aligned_cols=39 Identities=18% Similarity=0.152 Sum_probs=27.4
Q ss_pred CcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEecCCCcee
Q psy17065 68 GKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMGDNGELR 112 (150)
Q Consensus 68 G~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~ 112 (150)
+|+.-..|++||..- ..--.|-.|+.++++|-|.|||||
T Consensus 476 kKl~rDVFkkGD~~f------~tGDlLv~D~~GylYF~DRtGDTF 514 (649)
T KOG1179|consen 476 KKLLRDVFKKGDVYF------NTGDLLVADELGYLYFKDRTGDTF 514 (649)
T ss_pred hhhHHhhhccCcEEE------eeCcEEEEecCCcEEEeccCCCce
Confidence 345556677777542 234456677789999999999988
No 69
>PF02590 SPOUT_MTase: Predicted SPOUT methyltransferase; InterPro: IPR003742 This family of proteins are predicted to be SPOUT methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1VH0_E 4FAK_A 1TO0_G 1O6D_A 1NS5_B.
Probab=25.38 E-value=1.6e+02 Score=22.54 Aligned_cols=44 Identities=18% Similarity=0.301 Sum_probs=29.8
Q ss_pred CCCcEEEecCCCceeeeeecChhhHHHHHHhhccCCC-eEEEEEecccce
Q psy17065 98 DDGYLSLMGDNGELREDLKLPEGELGAQLRSDYDAGK-ELLVSFIFLLLF 146 (150)
Q Consensus 98 ~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~-~v~v~~~~~~g~ 146 (150)
.+++++.+|+.|. .++-..+.+.+.+|...|. .+...+=-+.|.
T Consensus 66 ~~~~~i~Ld~~Gk-----~~sS~~fA~~l~~~~~~g~~~i~F~IGG~~G~ 110 (155)
T PF02590_consen 66 PNDYVILLDERGK-----QLSSEEFAKKLERWMNQGKSDIVFIIGGADGL 110 (155)
T ss_dssp TTSEEEEE-TTSE-----E--HHHHHHHHHHHHHTTS-EEEEEE-BTTB-
T ss_pred CCCEEEEEcCCCc-----cCChHHHHHHHHHHHhcCCceEEEEEecCCCC
Confidence 4778899998888 5566777788888888886 677666556654
No 70
>PRK10965 multicopper oxidase; Provisional
Probab=25.28 E-value=2.2e+02 Score=26.02 Aligned_cols=48 Identities=4% Similarity=-0.096 Sum_probs=34.2
Q ss_pred ccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEec
Q psy17065 28 RKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDV 83 (150)
Q Consensus 28 kkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~ 83 (150)
..|+.+.+||.++-.++. ||+ .+|+++.|--+-+.+...+..++++.+
T Consensus 210 ~~gd~~lVNG~~~p~~~v----~~~----~~RlRliNas~~r~~~l~~~dg~~~~v 257 (523)
T PRK10965 210 WFGDTLLTNGAIYPQHAA----PRG----WLRLRLLNGCNARSLNLATSDGRPLYV 257 (523)
T ss_pred ccCCeEEECCcccceeec----CCC----EEEEEEEeccCCceEEEEEcCCceEEE
Confidence 468899999997654432 332 789999999888887777755555543
No 71
>PF13989 YejG: YejG-like protein
Probab=25.14 E-value=69 Score=23.47 Aligned_cols=16 Identities=25% Similarity=0.453 Sum_probs=12.7
Q ss_pred ccEEEECCeeEEEEEe
Q psy17065 30 NGFVMLKARPCKIVDM 45 (150)
Q Consensus 30 G~~i~i~g~P~~V~~~ 45 (150)
..+++.+|+||.-+..
T Consensus 69 ~~vvE~eGepCLFv~~ 84 (106)
T PF13989_consen 69 CAVVEWEGEPCLFVHR 84 (106)
T ss_pred ceEEEecCCceEEEec
Confidence 4589999999987644
No 72
>COG0090 RplB Ribosomal protein L2 [Translation, ribosomal structure and biogenesis]
Probab=25.11 E-value=2.2e+02 Score=24.19 Aligned_cols=53 Identities=19% Similarity=0.231 Sum_probs=28.7
Q ss_pred ccccccccEEEECCeeE--EEEEeeEecCCCCcc------cEEEEEEEEcccCcEEEEeecCCCe
Q psy17065 24 CSALRKNGFVMLKARPC--KIVDMSTSKTGKHGH------AKVHMVGLDIFSGKKYEDICPSTHN 80 (150)
Q Consensus 24 ~~~ikkG~~i~i~g~P~--~V~~~~~~kpGKhG~------A~v~~k~knl~TG~~~e~t~~s~~~ 80 (150)
..+|+.|..+-+.+-|- .|-.++ .+||++|+ +.+++..++ |...-..++|++.
T Consensus 121 ~a~ik~GN~lpL~~IP~Gt~VhNVE-~~pG~GGq~aRSaGtyA~vv~~~---~~y~~vrLpSGe~ 181 (275)
T COG0090 121 DADIKPGNALPLGNIPEGTIVHNVE-LKPGDGGQLARSAGTYAQVVGKE---GNYVIVRLPSGEM 181 (275)
T ss_pred CCCcCCcceeeeccCCCCceEEeee-eccCCCceEEEeCCceEEEEEcc---CCEEEEECCCCCe
Confidence 34677777777766662 222222 46888541 334455555 4455555666654
No 73
>PF08806 Sep15_SelM: Sep15/SelM redox domain; InterPro: IPR014912 Sep15 and SelM are eukaryotic selenoproteins that have a thioredoxin-like domain and a surface accessible active site redox motif []. This suggests that they function as thiol-disulphide isomerases involved in disulphide bond formation in the endoplasmic reticulum []. ; PDB: 2A4H_A 2A2P_A.
Probab=24.88 E-value=82 Score=21.47 Aligned_cols=29 Identities=17% Similarity=0.278 Sum_probs=17.3
Q ss_pred eeEEEEeeCCCcEEEecCCCceeeeeecCh
Q psy17065 90 DYQLTDISDDGYLSLMGDNGELREDLKLPE 119 (150)
Q Consensus 90 ~~qyly~d~~~~~~fMdet~e~~Eqi~l~~ 119 (150)
.++|+.-. .-.++|+|++|+..|.|.|.+
T Consensus 34 ~vk~i~G~-~P~L~l~d~~g~~~E~i~i~~ 62 (78)
T PF08806_consen 34 EVKYIPGA-PPELVLLDEDGEEVERINIEK 62 (78)
T ss_dssp EEEEESS----EEEEE-SSS--SEEEE-SS
T ss_pred EEEEeCCC-CCEEEEEcCCCCEEEEEEccc
Confidence 45666655 567999998899899999975
No 74
>TIGR00307 S8e ribosomal protein S8.e. Archaeal and eukaryotic ribosomal protein S8. This model could easily have been split into two models, one for eukaryotic S8 and one for archaeal S8; eukaryotic forms invariably have in insert of about 80 residues that archaeal forms of S8 do not.
Probab=24.83 E-value=92 Score=23.51 Aligned_cols=32 Identities=16% Similarity=0.282 Sum_probs=25.4
Q ss_pred eeeeeccccccccEEEECCeeEEEEEeeEecCCCCc
Q psy17065 19 TYPMQCSALRKNGFVMLKARPCKIVDMSTSKTGKHG 54 (150)
Q Consensus 19 t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG 54 (150)
...+..+-|-||.+|..+=..++|. +.||++|
T Consensus 87 ~~yvR~niitKGaIIetd~g~A~VT----srPgQdG 118 (127)
T TIGR00307 87 NHYVRRNVITKGAIVETDIGYARVT----SRPGQDG 118 (127)
T ss_pred HHHhhcCcEecceEEEEeeeEEEEe----cCCCcCc
Confidence 3455677899999999997777765 5799988
No 75
>PF11948 DUF3465: Protein of unknown function (DUF3465); InterPro: IPR021856 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=24.35 E-value=1.4e+02 Score=22.69 Aligned_cols=39 Identities=13% Similarity=0.139 Sum_probs=27.7
Q ss_pred eccccccccEEEECCeeE-----EEEEeeEecC-CCCcccEEEEE
Q psy17065 23 QCSALRKNGFVMLKARPC-----KIVDMSTSKT-GKHGHAKVHMV 61 (150)
Q Consensus 23 ~~~~ikkG~~i~i~g~P~-----~V~~~~~~kp-GKhG~A~v~~k 61 (150)
...+|++|+.|.+.|+=. -|+...|+.| |+|-...+...
T Consensus 82 rip~l~~GD~V~f~GeYe~n~kggvIHWTH~dp~~~h~~Gwl~~n 126 (131)
T PF11948_consen 82 RIPWLQKGDQVEFYGEYEWNPKGGVIHWTHHDPRGRHPDGWLKHN 126 (131)
T ss_pred cCcCcCCCCEEEEEEEEEECCCCCEEEeeccCCCCCCCCeeEEEC
Confidence 356799999999998743 3788888877 56644455444
No 76
>KOG1999|consensus
Probab=24.15 E-value=2e+02 Score=28.74 Aligned_cols=78 Identities=17% Similarity=0.217 Sum_probs=53.8
Q ss_pred EcccCcEEEEeecCCCeEecceEEEEeeEEEEee-CCCcEEEecCCCceeeeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 64 DIFSGKKYEDICPSTHNMDVPFVKREDYQLTDIS-DDGYLSLMGDNGELREDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 64 nl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d-~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
-+++.+..+..|..+|.|++..-+-+.++=+-.. ++...+.|-+--++.+-+.+|.. +|++||+.|+-|.|.--.
T Consensus 397 t~~~~r~~~~~F~~GD~VeV~~Gel~glkG~ve~vdg~~vti~~~~e~l~~pl~~~~~----eLrKyF~~GDhVKVi~G~ 472 (1024)
T KOG1999|consen 397 TLKSNRKKKHLFSPGDAVEVIVGELKGLKGKVESVDGTIVTIMSKHEDLKGPLEVPAS----ELRKYFEPGDHVKVIAGR 472 (1024)
T ss_pred eeccccccccccCCCCeEEEeeeeeccceeEEEeccCceEEEeeccccCCCccccchH----hhhhhccCCCeEEEEecc
Confidence 6778888888999999999999999988765544 35556666531112234455544 357899999888876544
Q ss_pred ccc
Q psy17065 143 LLL 145 (150)
Q Consensus 143 ~~g 145 (150)
.=|
T Consensus 473 ~eG 475 (1024)
T KOG1999|consen 473 YEG 475 (1024)
T ss_pred ccC
Confidence 433
No 77
>PRK11835 hypothetical protein; Provisional
Probab=23.94 E-value=75 Score=23.55 Aligned_cols=27 Identities=15% Similarity=0.313 Sum_probs=17.5
Q ss_pred ccEEEECCeeEEEEEeeEecCCCCcccEEEEE
Q psy17065 30 NGFVMLKARPCKIVDMSTSKTGKHGHAKVHMV 61 (150)
Q Consensus 30 G~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k 61 (150)
..+++.+|+||.-+..+-- .+|.+|+|
T Consensus 72 ~~ivEweGepCLFv~~~DE-----~aa~CrLK 98 (114)
T PRK11835 72 CSVLECEGEPCLFVNRQDE-----SAATCRLK 98 (114)
T ss_pred ceEEEecCCceEEEecccc-----hhhheeec
Confidence 4588999999977643322 34565554
No 78
>KOG1296|consensus
Probab=23.54 E-value=2.2e+02 Score=22.30 Aligned_cols=82 Identities=12% Similarity=0.136 Sum_probs=52.0
Q ss_pred EEEEEeeEecCCCCcccEEEEEE--------EEcccCcEEEEeecCCCeEe-cceEEEEeeEEEEeeCCCcEEEec-CCC
Q psy17065 40 CKIVDMSTSKTGKHGHAKVHMVG--------LDIFSGKKYEDICPSTHNMD-VPFVKREDYQLTDISDDGYLSLMG-DNG 109 (150)
Q Consensus 40 ~~V~~~~~~kpGKhG~A~v~~k~--------knl~TG~~~e~t~~s~~~ve-~~~v~~~~~qyly~d~~~~~~fMd-et~ 109 (150)
|..+.=...-||-+|.|-.-.|. .+|..+...-.|...+++.. ++.++.|-++-+.-+.++.|.--- |+|
T Consensus 45 ~I~l~E~~~~pg~Rgta~~v~KCK~C~Rensv~iv~~~~~pyt~ed~e~~~~i~vfdCRG~EpidF~p~~~w~a~s~esG 124 (161)
T KOG1296|consen 45 YITLNEEVAMPGSRGTASFVMKCKFCSRENSVTIVAFEDKPYTAEDSEKFKTIVVFDCRGLEPIDFYPRTGWFAVSAESG 124 (161)
T ss_pred EEEeeeeecCCCCcchhhHhhhhhhhcccCcEEEecCCCCcccccccccccceEEEeccCCcceeecCCceEEEEecccC
Confidence 33333344466633766332222 24555555555555666665 567799999999988666555554 999
Q ss_pred ceeeeeecChhh
Q psy17065 110 ELREDLKLPEGE 121 (150)
Q Consensus 110 e~~Eqi~l~~~~ 121 (150)
..|+.|-|+.+.
T Consensus 125 ~~f~eidlse~e 136 (161)
T KOG1296|consen 125 TAFSEIDLSEKE 136 (161)
T ss_pred ceeeeeeccccc
Confidence 999999998753
No 79
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=23.21 E-value=1.1e+02 Score=16.84 Aligned_cols=21 Identities=33% Similarity=0.377 Sum_probs=14.7
Q ss_pred cccEEEE-----CCeeEEEEEeeEec
Q psy17065 29 KNGFVML-----KARPCKIVDMSTSK 49 (150)
Q Consensus 29 kG~~i~i-----~g~P~~V~~~~~~k 49 (150)
+|+.+++ .|..++|+++...+
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i~~~~ 26 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEIDRSK 26 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEEETTT
T ss_pred CCCEEEEeEcCCCCceEEEEEEECCC
Confidence 4666666 67788888876543
No 80
>PLN00208 translation initiation factor (eIF); Provisional
Probab=23.02 E-value=3.4e+02 Score=20.89 Aligned_cols=77 Identities=21% Similarity=0.154 Sum_probs=47.5
Q ss_pred cCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEecCCCceeeeeecChhhHHHHHHh
Q psy17065 49 KTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMGDNGELREDLKLPEGELGAQLRS 128 (150)
Q Consensus 49 kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~ 128 (150)
++|||| +.+=+++|-..+.+.+..+|....+- ++.+-.-+++.|-.+..+|.++ -..+|...= . +-
T Consensus 4 ~k~kgg--k~~~~~k~~~~~~~~el~~p~egq~~--------g~V~~~lGn~~~~V~c~dG~~r-La~IpGKmR--K-rI 69 (145)
T PLN00208 4 NKGKGG--KNRKRGKNEADDEKRELIFKEDGQEY--------AQVLRMLGNGRCEALCIDGTKR-LCHIRGKMR--K-KV 69 (145)
T ss_pred CCCCCc--cccccccccCccceeecccCCCCcEE--------EEEEEEcCCCEEEEEECCCCEE-EEEEeccce--e-eE
Confidence 457744 55566678888888888887644332 2222333455666666567655 455665432 2 45
Q ss_pred hccCCCeEEEE
Q psy17065 129 DYDAGKELLVS 139 (150)
Q Consensus 129 ~l~eg~~v~v~ 139 (150)
|+.+|+-|.|.
T Consensus 70 WI~~GD~VlVe 80 (145)
T PLN00208 70 WIAAGDIILVG 80 (145)
T ss_pred EecCCCEEEEE
Confidence 88999888875
No 81
>PRK07963 fliN flagellar motor switch protein FliN; Validated
Probab=22.94 E-value=1.9e+02 Score=21.96 Aligned_cols=42 Identities=19% Similarity=0.193 Sum_probs=24.8
Q ss_pred cccccccEEEEC---CeeEEEE----EeeEecCCCCcccEEEEEEEEccc
Q psy17065 25 SALRKNGFVMLK---ARPCKIV----DMSTSKTGKHGHAKVHMVGLDIFS 67 (150)
Q Consensus 25 ~~ikkG~~i~i~---g~P~~V~----~~~~~kpGKhG~A~v~~k~knl~T 67 (150)
-+|++|++|.++ ++|..|. -+-+..+|.++ -++-+++.++.+
T Consensus 79 L~L~~GDVI~Ld~~~~epv~V~Vng~~if~GevGvv~-~k~AVrIteii~ 127 (137)
T PRK07963 79 LRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVA-DKYGVRITDIIT 127 (137)
T ss_pred hCCCCCCEEEeCCCCCCCEEEEECCEEEEEEEEEEEC-CEEEEEEEEecC
Confidence 368999999998 5776663 23333444432 344455555544
No 82
>PLN02792 oxidoreductase
Probab=22.60 E-value=2.4e+02 Score=25.97 Aligned_cols=54 Identities=15% Similarity=0.014 Sum_probs=34.6
Q ss_pred cccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEE
Q psy17065 29 KNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVK 87 (150)
Q Consensus 29 kG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~ 87 (150)
.++.+.+||.+-.....-.++||| .+|+++.|.-.-..+...+. ++++.++..+
T Consensus 178 ~~d~~liNG~~~~~~~~~~v~~Gk----~yRlRliNa~~~~~~~f~i~-gH~~tVI~~D 231 (536)
T PLN02792 178 MPDGVMINGQGVSYVYSITVDKGK----TYRFRISNVGLQTSLNFEIL-GHQLKLIEVE 231 (536)
T ss_pred CCCEEEEeccCCCCcceEEECCCC----EEEEEEEEcCCCceEEEEEC-CcEEEEEEeC
Confidence 457899999851111223357887 88999999877666655554 6666555443
No 83
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=22.53 E-value=1.1e+02 Score=24.83 Aligned_cols=41 Identities=12% Similarity=0.108 Sum_probs=28.7
Q ss_pred eccccccccEEEECCeeEEEEEeeEecCCCCcccEEEEEEEEccc
Q psy17065 23 QCSALRKNGFVMLKARPCKIVDMSTSKTGKHGHAKVHMVGLDIFS 67 (150)
Q Consensus 23 ~~~~ikkG~~i~i~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~T 67 (150)
+--.|++|+.|.++|+-..|++++.. +||. .-+.+..+|.|
T Consensus 71 ~gE~l~vGDei~vd~e~veITSIE~~-~gkR---V~~A~veeIeT 111 (201)
T COG1326 71 PGETLKVGDEIEVDGEEVEITSIELG-GGKR---VKSAKVEEIET 111 (201)
T ss_pred CCCeEecCCEEEEcCCEEEEEEEeeC-CCcc---ccccccceeee
Confidence 44568999999999999999998843 5652 22344455544
No 84
>PF01079 Hint: Hint module; InterPro: IPR001767 This domain identifies a group of cysteine peptidases correspond to MEROPS peptidase family C46 (clan CH). The type example is the Hedgehog protein from Drosophila melanogaster (Fruit fly). These are involved in intracellular signalling required for a variety of patterning events during development. The hedgehog family of proteins self process by a cysteine-dependent mechanism, which is a one-time autolytic cleavage. It is differentiated from a typical peptidase reaction by the fact that the newly-formed carboxyl group is esterified with cholesterol, rather than being left free. The three-dimensional structure of the autolytic domain of the hedgehog protein of D. melanogaster shows that it is formed from two divergent copies of a module that also occurs in inteins, called a Hint domain [,].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3K7H_B 3K7I_B 3K7G_B 1AT0_A 3MXW_A 3M1N_B 3HO5_H 2WFR_A 2WFQ_A 2WG3_B ....
Probab=22.42 E-value=1.5e+02 Score=23.99 Aligned_cols=29 Identities=31% Similarity=0.472 Sum_probs=19.8
Q ss_pred eeeeccccccccEEEE------CCeeEEEEEeeEe
Q psy17065 20 YPMQCSALRKNGFVML------KARPCKIVDMSTS 48 (150)
Q Consensus 20 ~~i~~~~ikkG~~i~i------~g~P~~V~~~~~~ 48 (150)
.++-|++++.|++|.. .-.|-+|+++...
T Consensus 99 ~~vfA~~V~~Gd~v~~~~~~~~~~~~~~V~~v~~~ 133 (217)
T PF01079_consen 99 RAVFASDVRVGDCVLVSDEGGGKLRPSRVVRVSTV 133 (217)
T ss_dssp EEEEGGG--TT-EEEEE-TTT--EEEEEEEEEEEE
T ss_pred ceeehhhCCCCCEEEEEEcCCCcEEEEEEEEEEEE
Confidence 7899999999999999 2347777776654
No 85
>PF13144 SAF_2: SAF-like
Probab=22.20 E-value=3.6e+02 Score=20.59 Aligned_cols=24 Identities=13% Similarity=0.093 Sum_probs=18.9
Q ss_pred EEEEEEcccCcEEEEeecCCCeEe
Q psy17065 59 HMVGLDIFSGKKYEDICPSTHNMD 82 (150)
Q Consensus 59 ~~k~knl~TG~~~e~t~~s~~~ve 82 (150)
.++.+|+.||+.+.-+.-+...|+
T Consensus 172 ~I~V~N~~S~k~v~g~V~~~~~V~ 195 (196)
T PF13144_consen 172 TIRVKNLSSGKIVQGRVIGPGTVE 195 (196)
T ss_pred EEEEEECCCCCEEEEEEecCCEEE
Confidence 578889999999888777766654
No 86
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=22.01 E-value=1.7e+02 Score=22.71 Aligned_cols=21 Identities=19% Similarity=0.377 Sum_probs=13.7
Q ss_pred ccccccEEEEC---CeeEEEEEee
Q psy17065 26 ALRKNGFVMLK---ARPCKIVDMS 46 (150)
Q Consensus 26 ~ikkG~~i~i~---g~P~~V~~~~ 46 (150)
-+|.|++|.++ |.||.|-.|.
T Consensus 3 ~yrvGD~Vy~~~~~~~Py~I~rI~ 26 (164)
T cd04709 3 MYRVGDYVYFESSPNNPYLIRRIE 26 (164)
T ss_pred EEecCCEEEEECCCCCCCEEEEEE
Confidence 46889988886 4565554443
No 87
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=21.97 E-value=88 Score=19.70 Aligned_cols=25 Identities=28% Similarity=0.440 Sum_probs=18.4
Q ss_pred eeeecChhhHHHHHHhhccCCCeEEEEEec
Q psy17065 113 EDLKLPEGELGAQLRSDYDAGKELLVSFIF 142 (150)
Q Consensus 113 Eqi~l~~~~lgd~~~~~l~eg~~v~v~~~~ 142 (150)
++|.||+.+|..+ ..|+.|.|.+.+
T Consensus 20 ~DifIp~~~l~~A-----~~gD~V~v~i~~ 44 (58)
T PF08206_consen 20 EDIFIPPRNLNGA-----MDGDKVLVRITP 44 (58)
T ss_dssp EEEEE-HHHHTTS------TT-EEEEEEEE
T ss_pred CCEEECHHHHCCC-----CCCCEEEEEEec
Confidence 4999999988765 378999998886
No 88
>PRK06788 flagellar motor switch protein; Validated
Probab=21.96 E-value=1.9e+02 Score=21.48 Aligned_cols=43 Identities=7% Similarity=0.102 Sum_probs=25.6
Q ss_pred cccccccEEEEC---CeeEEEE----EeeEecCCCCcccEEEEEEEEcccC
Q psy17065 25 SALRKNGFVMLK---ARPCKIV----DMSTSKTGKHGHAKVHMVGLDIFSG 68 (150)
Q Consensus 25 ~~ikkG~~i~i~---g~P~~V~----~~~~~kpGKhG~A~v~~k~knl~TG 68 (150)
-+|+.|++|.++ ++|..|. .+-+.+||..+ -.+-+++..+.+.
T Consensus 53 L~L~vGDVI~Ldk~~~dpv~v~Vng~~~f~G~~Gv~~-~~~AVrItei~~~ 102 (119)
T PRK06788 53 KQLKVGDVLEVEKNLGHKVDVYLSNMKVGIGEAIVMD-EKFGIIISEIEAD 102 (119)
T ss_pred hCCCCCCEEEeCCcCCCCEEEEECCEEEEEEEEEEEC-CEEEEEEEEecCh
Confidence 368899999998 4565552 23344555533 3455666666553
No 89
>PF08294 TIM21: TIM21; InterPro: IPR013261 TIM21 interacts with the outer mitochondrial TOM complex and promotes the insertion of proteins into the inner mitochondrial membrane [].; PDB: 2CIU_A.
Probab=21.40 E-value=3.7e+02 Score=20.34 Aligned_cols=29 Identities=14% Similarity=0.082 Sum_probs=17.3
Q ss_pred CCeeEEEEEeeEecCCCCcccEEEEEEEEcc
Q psy17065 36 KARPCKIVDMSTSKTGKHGHAKVHMVGLDIF 66 (150)
Q Consensus 36 ~g~P~~V~~~~~~kpGKhG~A~v~~k~knl~ 66 (150)
+|..+..+.+.-.-|. |.+.|++.++.-.
T Consensus 91 ~G~eh~~m~F~V~G~~--~~G~V~~e~~k~~ 119 (145)
T PF08294_consen 91 DGREHMRMKFYVEGPR--GKGVVHLEMVKDD 119 (145)
T ss_dssp TS-EEEEEEEEEE-SS---EEEEEEEEE--S
T ss_pred CCCEEEEEEEEEEeCC--CeEEEEEEEEECC
Confidence 7888888887766544 5567777776554
No 90
>PF08838 DUF1811: Protein of unknown function (DUF1811); InterPro: IPR014938 This entry consists uncharacterised bacterial proteins. Some of the proteins are annotated as being transcriptional regulators (see Q4MQL7 from SWISSPROT, Q65MA2 from SWISSPROT). The structure of one of the proteins has revealed a beta-barrel like structure with helix-turn-helix like motif. ; PDB: 2YXY_A 1SF9_A.
Probab=21.16 E-value=1.2e+02 Score=22.18 Aligned_cols=31 Identities=13% Similarity=0.240 Sum_probs=21.5
Q ss_pred eeeeeccccccccEEEECCeeEEEEEeeEec
Q psy17065 19 TYPMQCSALRKNGFVMLKARPCKIVDMSTSK 49 (150)
Q Consensus 19 t~~i~~~~ikkG~~i~i~g~P~~V~~~~~~k 49 (150)
.|.+..++|++|.+..++|.|-.-..++..+
T Consensus 47 sYl~dp~~f~~G~~Y~i~~~~~~~F~V~yln 77 (102)
T PF08838_consen 47 SYLLDPSDFRPGEIYRIEGDPEEYFKVDYLN 77 (102)
T ss_dssp HCCS-GGGS-TT-EEEETTCCCEEEEEEEEE
T ss_pred HHhCChhhccCCCEEEecCCCCceEEEEEEe
Confidence 5788999999999999997766555555554
No 91
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=20.96 E-value=1.6e+02 Score=19.96 Aligned_cols=30 Identities=10% Similarity=0.004 Sum_probs=20.4
Q ss_pred cEEEEEEEEcccCcEEEEeecCCCeEecceE
Q psy17065 56 AKVHMVGLDIFSGKKYEDICPSTHNMDVPFV 86 (150)
Q Consensus 56 A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v 86 (150)
..+.++++|.- .+.++.+|+|+.++|....
T Consensus 2 v~~~l~v~N~s-~~~v~l~f~sgq~~D~~v~ 31 (82)
T PF12690_consen 2 VEFTLTVTNNS-DEPVTLQFPSGQRYDFVVK 31 (82)
T ss_dssp EEEEEEEEE-S-SS-EEEEESSS--EEEEEE
T ss_pred EEEEEEEEeCC-CCeEEEEeCCCCEEEEEEE
Confidence 35667778875 4778899999999998887
No 92
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=20.30 E-value=3.2e+02 Score=19.21 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=18.1
Q ss_pred EEEEEEcccCcEEEEeecCCCeEe
Q psy17065 59 HMVGLDIFSGKKYEDICPSTHNMD 82 (150)
Q Consensus 59 ~~k~knl~TG~~~e~t~~s~~~ve 82 (150)
.++.+|+.||+.+.-+..+...++
T Consensus 98 ~I~V~N~~s~k~i~~~V~~~g~V~ 121 (122)
T TIGR03170 98 QIRVRNLSSGKIISGIVTGPGTVE 121 (122)
T ss_pred EEEEEECCCCCEEEEEEeCCCEEE
Confidence 578889999998887776655553
No 93
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=20.18 E-value=4.3e+02 Score=20.60 Aligned_cols=78 Identities=23% Similarity=0.187 Sum_probs=48.9
Q ss_pred cCCCCcccEEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEecCCCceeeeeecChhhHHHHHHh
Q psy17065 49 KTGKHGHAKVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMGDNGELREDLKLPEGELGAQLRS 128 (150)
Q Consensus 49 kpGKhG~A~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMdet~e~~Eqi~l~~~~lgd~~~~ 128 (150)
+.|||| +-+=++||-.-+.+++.+++....+- ++.+-.-+++.|-.+.++|.++ -..+|...= . +-
T Consensus 4 ~kgkgg--k~~~rgk~~~~~~~rel~~~eegq~~--------g~V~~~LGn~~f~V~c~dG~~r-La~I~GKmR--K-~I 69 (155)
T PTZ00329 4 NKGKGG--KNRRRGKNDNEGEKRELVFKEEGQEY--------AQVLRMLGNGRLEAYCFDGVKR-LCHIRGKMR--K-RV 69 (155)
T ss_pred CCCCCC--cccccccccCccceeeeccCCCCcEE--------EEEEEEcCCCEEEEEECCCCEE-EEEeeccce--e-eE
Confidence 357755 56667788888889999888533322 2223333455566666567655 455665442 2 45
Q ss_pred hccCCCeEEEEE
Q psy17065 129 DYDAGKELLVSF 140 (150)
Q Consensus 129 ~l~eg~~v~v~~ 140 (150)
|+.+|+-|.|.+
T Consensus 70 WI~~GD~VlVel 81 (155)
T PTZ00329 70 WINIGDIILVSL 81 (155)
T ss_pred EecCCCEEEEec
Confidence 889999888854
No 94
>TIGR03075 PQQ_enz_alc_DH PQQ-dependent dehydrogenase, methanol/ethanol family. This protein family has a phylogenetic distribution very similar to that coenzyme PQQ biosynthesis enzymes, as shown by partial phylogenetic profiling. Genes in this family often are found adjacent to the PQQ biosynthesis genes themselves. An unusual, strained disulfide bond between adjacent Cys residues contributes to PQQ-binding, as does a Trp residue that is part of a PQQ enzyme repeat (see pfam01011). Characterized members include the dehydrogenase subunit of a membrane-anchored, three subunit alcohol (ethanol) dehydrogenase of Gluconobacter suboxydans, a homodimeric ethanol dehydrogenase in Pseudomonas aeruginosa, and the large subunit of an alpha2/beta2 heterotetrameric methanol dehydrogenase in Methylobacterium extorquens.
Probab=20.12 E-value=6.2e+02 Score=22.97 Aligned_cols=80 Identities=16% Similarity=0.149 Sum_probs=47.6
Q ss_pred EEEEEEEEcccCcEEEEeecCCCeEecceEEEEeeEEEEeeCCCcEEEec-CCCceeeeeecChhhHHHHHHhhccCCCe
Q psy17065 57 KVHMVGLDIFSGKKYEDICPSTHNMDVPFVKREDYQLTDISDDGYLSLMG-DNGELREDLKLPEGELGAQLRSDYDAGKE 135 (150)
Q Consensus 57 ~v~~k~knl~TG~~~e~t~~s~~~ve~~~v~~~~~qyly~d~~~~~~fMd-et~e~~Eqi~l~~~~lgd~~~~~l~eg~~ 135 (150)
.=.+.+.|+.||++.=++-...-..--+.+..-..-|. -+.++.+...| +||+..=++.++....+.- .-|..+|..
T Consensus 440 ~g~l~AiD~~tGk~~W~~~~~~p~~~~~l~t~g~lvf~-g~~~G~l~a~D~~TGe~lw~~~~g~~~~a~P-~ty~~~G~q 517 (527)
T TIGR03075 440 MGSLIAWDPITGKIVWEHKEDFPLWGGVLATAGDLVFY-GTLEGYFKAFDAKTGEELWKFKTGSGIVGPP-VTYEQDGKQ 517 (527)
T ss_pred ceeEEEEeCCCCceeeEecCCCCCCCcceEECCcEEEE-ECCCCeEEEEECCCCCEeEEEeCCCCceecC-EEEEeCCEE
Confidence 34588999999988765433222222333322233333 23366788999 9999776777776555543 445566666
Q ss_pred EEE
Q psy17065 136 LLV 138 (150)
Q Consensus 136 v~v 138 (150)
+.+
T Consensus 518 Yv~ 520 (527)
T TIGR03075 518 YVA 520 (527)
T ss_pred EEE
Confidence 554
Done!