Query psy17381
Match_columns 169
No_of_seqs 100 out of 189
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 21:01:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17381.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17381hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1854|consensus 100.0 1.7E-41 3.7E-46 309.9 15.5 156 7-169 500-655 (657)
2 PF09731 Mitofilin: Mitochondr 100.0 5.8E-41 1.3E-45 307.3 18.1 146 7-163 436-582 (582)
3 COG4223 Uncharacterized protei 99.5 1.4E-13 2.9E-18 120.0 13.8 136 9-162 284-419 (422)
4 PF07721 TPR_4: Tetratricopept 80.9 3.1 6.6E-05 22.6 3.3 24 106-129 3-26 (26)
5 PF13432 TPR_16: Tetratricopep 76.6 6.2 0.00013 25.0 4.3 46 108-154 1-47 (65)
6 PF13428 TPR_14: Tetratricopep 71.3 6 0.00013 23.8 3.0 25 105-129 2-26 (44)
7 PF14559 TPR_19: Tetratricopep 71.1 8.8 0.00019 24.3 4.0 30 103-132 24-53 (68)
8 TIGR03504 FimV_Cterm FimV C-te 64.9 7.9 0.00017 24.3 2.6 23 108-130 3-25 (44)
9 PRK15359 type III secretion sy 60.3 41 0.00089 25.3 6.4 63 102-164 22-84 (144)
10 COG3118 Thioredoxin domain-con 58.0 1.3E+02 0.0029 26.5 9.9 97 17-135 86-199 (304)
11 PF13174 TPR_6: Tetratricopept 56.9 14 0.00029 19.9 2.5 26 105-130 1-26 (33)
12 PF12895 Apc3: Anaphase-promot 55.0 32 0.00069 23.0 4.6 55 104-159 25-79 (84)
13 PF14863 Alkyl_sulf_dimr: Alky 53.2 19 0.00041 28.0 3.5 28 103-130 69-96 (141)
14 TIGR02795 tol_pal_ybgF tol-pal 44.2 99 0.0021 20.9 6.0 48 105-152 40-90 (119)
15 PF07719 TPR_2: Tetratricopept 43.3 54 0.0012 17.6 3.6 24 106-129 3-26 (34)
16 COG2909 MalT ATP-dependent tra 42.5 1.2E+02 0.0027 30.4 7.9 29 3-31 225-273 (894)
17 smart00668 CTLH C-terminal to 40.2 47 0.001 20.5 3.3 28 106-133 3-30 (58)
18 PF14561 TPR_20: Tetratricopep 39.1 55 0.0012 23.2 3.9 48 103-150 21-86 (90)
19 PF13512 TPR_18: Tetratricopep 39.1 50 0.0011 25.8 3.9 32 101-132 7-38 (142)
20 PF13414 TPR_11: TPR repeat; P 37.0 96 0.0021 19.4 4.5 48 103-151 2-50 (69)
21 PF12793 SgrR_N: Sugar transpo 35.3 70 0.0015 23.8 4.1 26 105-130 71-96 (115)
22 PRK13890 conjugal transfer pro 35.1 53 0.0011 24.5 3.4 28 123-150 91-118 (120)
23 PF07980 SusD: SusD family; I 35.0 87 0.0019 24.9 4.9 28 104-131 133-160 (266)
24 PF04010 DUF357: Protein of un 34.6 53 0.0011 22.8 3.1 25 104-128 35-59 (75)
25 PRK15363 pathogenicity island 33.6 1.6E+02 0.0036 23.3 6.1 65 103-167 34-98 (157)
26 PF04097 Nic96: Nup93/Nic96; 33.0 1.2E+02 0.0025 28.9 6.1 99 39-144 53-158 (613)
27 PF00515 TPR_1: Tetratricopept 31.2 94 0.002 16.8 3.6 24 106-129 3-26 (34)
28 smart00028 TPR Tetratricopepti 30.5 71 0.0015 15.2 2.7 24 106-129 3-26 (34)
29 PF09976 TPR_21: Tetratricopep 30.3 2.2E+02 0.0048 20.9 6.2 25 105-129 49-73 (145)
30 TIGR02552 LcrH_SycD type III s 30.1 2E+02 0.0043 20.2 6.0 28 103-130 16-43 (135)
31 PF05920 Homeobox_KN: Homeobox 30.0 60 0.0013 19.7 2.4 24 125-148 17-40 (40)
32 PF08134 cIII: cIII protein fa 28.8 82 0.0018 19.7 2.8 20 36-55 16-35 (44)
33 PF14223 UBN2: gag-polypeptide 28.8 1E+02 0.0022 22.0 4.0 40 14-53 64-113 (119)
34 PF13371 TPR_9: Tetratricopept 28.7 75 0.0016 20.1 3.0 27 103-129 28-54 (73)
35 PF10602 RPN7: 26S proteasome 28.1 1.8E+02 0.0039 22.9 5.6 46 104-149 36-84 (177)
36 PRK10866 outer membrane biogen 26.9 2.5E+02 0.0055 23.2 6.5 31 101-131 29-59 (243)
37 PF13181 TPR_8: Tetratricopept 26.6 1.1E+02 0.0025 16.3 3.6 23 107-129 4-26 (34)
38 PF13431 TPR_17: Tetratricopep 26.5 1E+02 0.0023 17.5 3.0 22 103-124 12-33 (34)
39 PRK11447 cellulose synthase su 26.3 1.4E+02 0.003 30.3 5.6 28 103-130 61-88 (1157)
40 TIGR02552 LcrH_SycD type III s 25.4 2.5E+02 0.0053 19.8 5.6 48 103-150 84-133 (135)
41 PRK08451 DNA polymerase III su 25.1 5.4E+02 0.012 24.3 8.9 110 33-149 172-289 (535)
42 PRK14952 DNA polymerase III su 25.0 6.1E+02 0.013 24.2 9.4 114 35-153 175-297 (584)
43 PF04418 DUF543: Domain of unk 24.1 2E+02 0.0043 20.1 4.5 38 36-82 12-50 (75)
44 PF12854 PPR_1: PPR repeat 24.0 1.1E+02 0.0023 17.4 2.7 21 110-130 13-33 (34)
45 PF13525 YfiO: Outer membrane 24.0 97 0.0021 24.6 3.4 29 103-131 4-32 (203)
46 TIGR03302 OM_YfiO outer membra 23.8 3.6E+02 0.0077 21.1 7.1 51 101-151 30-83 (235)
47 smart00073 HPT Histidine Phosp 23.7 1.4E+02 0.003 19.8 3.6 48 103-150 10-57 (87)
48 PF10938 YfdX: YfdX protein; 23.5 55 0.0012 25.6 1.8 34 108-141 6-39 (155)
49 PF04297 UPF0122: Putative hel 23.1 1.2E+02 0.0026 22.4 3.4 28 123-150 35-62 (101)
50 PF09920 DUF2150: Uncharacteri 23.1 4.3E+02 0.0093 21.8 9.4 104 31-145 53-174 (190)
51 PF10825 DUF2752: Protein of u 22.6 1.1E+02 0.0023 19.6 2.7 19 108-126 17-35 (52)
52 cd00923 Cyt_c_Oxidase_Va Cytoc 22.3 1.4E+02 0.0029 22.3 3.5 35 8-42 66-101 (103)
53 PF11657 Activator-TraM: Trans 21.2 1.9E+02 0.004 22.7 4.3 48 103-150 24-71 (144)
54 PRK10564 maltose regulon perip 21.2 1.3E+02 0.0028 26.5 3.7 28 102-129 254-282 (303)
55 COG4519 Uncharacterized protei 21.0 76 0.0017 22.9 1.9 20 125-144 26-45 (95)
56 KOG2076|consensus 21.0 2.6E+02 0.0056 28.3 6.1 58 103-160 413-471 (895)
57 PF09295 ChAPs: ChAPs (Chs5p-A 20.7 2.6E+02 0.0057 25.3 5.8 58 103-160 233-290 (395)
58 PF14276 DUF4363: Domain of un 20.7 97 0.0021 22.6 2.5 31 103-133 76-106 (121)
59 COG4105 ComL DNA uptake lipopr 20.3 1.1E+02 0.0024 26.3 3.1 41 102-144 32-72 (254)
No 1
>KOG1854|consensus
Probab=100.00 E-value=1.7e-41 Score=309.91 Aligned_cols=156 Identities=38% Similarity=0.539 Sum_probs=145.1
Q ss_pred HHHHHHhcCCChHHHHHHHhCChHHhhcCCCCHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhhhccCCCC
Q psy17381 7 LVRAREISKSDTFVETICAAFPSAALSRGVYSEQALRSRFIGVQDSAYRVALVPDESASLPLVFLSYLQSLFIIRGLAAI 86 (169)
Q Consensus 7 ~~~l~~~~~~D~~v~~~l~slp~~a~~~GV~t~~~L~~rF~~v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~~~~~ 86 (169)
+-++|+.+.+|+||.+++.+||+++..+||||+++|++||+.|++.+||+|+|||+||++++||+| ++|+|+|+++
T Consensus 500 vn~~k~~~~~delv~a~~~~ipk~~~~rgiysee~L~~RF~~l~ki~rr~a~l~e~gg~lg~yf~s-l~Slfl~~~~--- 575 (657)
T KOG1854|consen 500 VNALKEVTKDDELVAAALDSIPKEADTRGIYSEEDLRNRFNTLSKIARRTALLPEEGGFLGQYFLS-LQSLFLLSPQ--- 575 (657)
T ss_pred HHHHhccCCcHHHHHHHHHhcccccccCCCCCHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHH-hhhheeecHh---
Confidence 457888899999999999999999999999999999999999999999999999999999999999 9999999932
Q ss_pred CCccccCCccccccCCCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy17381 87 SPEEIRDEPSAKLNSLNTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLSHAASVS 166 (169)
Q Consensus 87 ~~~e~~~~~~d~~~~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a~a~~~s 166 (169)
...+++++| |...|+|.||+||+||+.+|||+.|+|+||+|+||||++|.|||+|||++||++|++++|.|||+++|
T Consensus 576 --q~g~~~~~~-p~~~d~~~iLsrA~~~~~~gdl~~Avr~v~lLkG~pr~va~dWi~daRr~lE~qql~eiL~AhAa~ss 652 (657)
T KOG1854|consen 576 --QLGNPVFLD-PNITDTYKILSRARYHLLKGDLDDAVRVVNLLKGWPRKVARDWIKDARRRLETQQLVEILKAHAAASS 652 (657)
T ss_pred --hcCCCccCC-cccccHHHHHHHHHHHHhcccHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 122234566 88899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccC
Q psy17381 167 FVQ 169 (169)
Q Consensus 167 l~~ 169 (169)
+++
T Consensus 653 i~~ 655 (657)
T KOG1854|consen 653 ILS 655 (657)
T ss_pred hhc
Confidence 974
No 2
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=100.00 E-value=5.8e-41 Score=307.28 Aligned_cols=146 Identities=36% Similarity=0.533 Sum_probs=137.7
Q ss_pred HHHHHHhcCCChHHHHHHHhCChHHhhcCCCCHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhhhccCC-C
Q psy17381 7 LVRAREISKSDTFVETICAAFPSAALSRGVYSEQALRSRFIGVQDSAYRVALVPDESASLPLVFLSYLQSLFIIRGLA-A 85 (169)
Q Consensus 7 ~~~l~~~~~~D~~v~~~l~slp~~a~~~GV~t~~~L~~rF~~v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~~~-~ 85 (169)
|.+||+++++|+||+++|++||+.+.++||+|.++|++||..|++.||+++|||+++||+++|++||++|+|+|++.+ .
T Consensus 436 l~~l~~~~~~d~~v~~~l~~l~~~a~~~Gv~s~~~L~~rf~~v~~~~r~~~l~~~~~~g~~~~~~s~~~S~l~~~~~~~~ 515 (582)
T PF09731_consen 436 LRALKELAPDDELVDAALSSLPPEAAQRGVPSEAQLRNRFERVAPEVRRASLVPPEGAGLLGHLLSYLFSLLLFRPKGGE 515 (582)
T ss_pred HHHHHHhCCCChHHHHHHHhcCHHHhhCCCCCHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHheeeeecCCCC
Confidence 678999999999999999999999999999999999999999999999999998888999999999999999999654 1
Q ss_pred CCCccccCCccccccCCCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17381 86 ISPEEIRDEPSAKLNSLNTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLSHAA 163 (169)
Q Consensus 86 ~~~~e~~~~~~d~~~~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a~a~ 163 (169)
+ + +.+.|+++||+||++||++|||+.|+|+||+|+||||.++.||+++||+|||++|++++|.+||+
T Consensus 516 ~--~---------~~~~d~~~ilarae~~l~~gdL~~A~~~~~~L~g~~~~~a~dW~~~ar~~le~~q~~~~l~a~a~ 582 (582)
T PF09731_consen 516 V--D---------PEGDDVESILARAEYYLERGDLDKAARELNQLKGWARKLAADWLKEARRRLEVEQALEVLEAHAA 582 (582)
T ss_pred C--C---------CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 1 1 45669999999999999999999999999999999999999999999999999999999999985
No 3
>COG4223 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.54 E-value=1.4e-13 Score=119.97 Aligned_cols=136 Identities=23% Similarity=0.253 Sum_probs=118.0
Q ss_pred HHHHhcCCChHHHHHHHhCChHHhhcCCCCHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhhhccCCCCCC
Q psy17381 9 RAREISKSDTFVETICAAFPSAALSRGVYSEQALRSRFIGVQDSAYRVALVPDESASLPLVFLSYLQSLFIIRGLAAISP 88 (169)
Q Consensus 9 ~l~~~~~~D~~v~~~l~slp~~a~~~GV~t~~~L~~rF~~v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~~~~~~~ 88 (169)
+|..++++||-|.. |-. ...+||+|..+|..+|..++..+...+.-|+-+.|+|..+.+..+|.+.|++.|.++|
T Consensus 284 tL~~VaP~dP~l~~----L~~-~A~tGvPTRaeL~~qF~~~AnamvsA~~~pd~nagl~~rL~~Sa~slVsVRpVGsveG 358 (422)
T COG4223 284 TLESVAPGDPALAA----LRP-YAATGVPTRAELATQFGAVANAMVSASNNPDPNAGLFDRLRSSASSLVSVRPVGSVEG 358 (422)
T ss_pred hHhhhCCCChhhHH----hhH-HHhcCCCcHHHHHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHhcceeeeeccccCC
Confidence 34444455544332 222 4478999999999999999999999999898778999999999999999999887777
Q ss_pred ccccCCccccccCCCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17381 89 EEIRDEPSAKLNSLNTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLSHA 162 (169)
Q Consensus 89 ~e~~~~~~d~~~~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a~a 162 (169)
+ .++..++|.|..|++|||+.|+-|.|+|+..+|.+..||-....+|+|++..++.+.+-+
T Consensus 359 ~-------------t~~a~iARmEa~L~~GDl~gA~~ewd~LpeaaKaa~a~f~~~l~aRieve~~V~a~va~a 419 (422)
T COG4223 359 S-------------TPDAMIARMEAALDNGDLEGAVLEWDSLPEAAKAASADFAVKLKARIEVETLVDALVADA 419 (422)
T ss_pred C-------------CcchHHHHHHHHHhccchHhHHHhhccCcHHHHHhhhhHHHHHHhhhhHHHHHHHHHhhh
Confidence 6 688999999999999999999999999999999999999999999999999999887654
No 4
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=80.89 E-value=3.1 Score=22.64 Aligned_cols=24 Identities=21% Similarity=0.195 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
..+..++.++..||+++|.+.+.+
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~~ 26 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLRR 26 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHhC
Confidence 456788999999999999998764
No 5
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=76.59 E-value=6.2 Score=25.05 Aligned_cols=46 Identities=11% Similarity=0.117 Sum_probs=30.9
Q ss_pred HHHHHHHHhcCCHHHHHHHHHccCC-hhHHHHHHHHHHHHHHHHHHHH
Q psy17381 108 LERARYFVDRSDLLQAVKYMNLLQG-GAKAVSQQWIADTLVYLETETA 154 (169)
Q Consensus 108 LsRA~~~L~~gdL~~Avrel~~L~G-~ar~va~dWl~~AR~rLE~~qa 154 (169)
+.++..+++.||+++|++.++++-. .|. -..=|..-++.+....+-
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~ 47 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRY 47 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-H
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCH
Confidence 4678899999999999999997533 443 445555555555544433
No 6
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=71.26 E-value=6 Score=23.79 Aligned_cols=25 Identities=16% Similarity=0.057 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 105 YEILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 105 ~~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
+..+..|+.+.+.|+++.|.+.++.
T Consensus 2 ~~~~~la~~~~~~G~~~~A~~~~~~ 26 (44)
T PF13428_consen 2 AAWLALARAYRRLGQPDEAERLLRR 26 (44)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 3567889999999999999999985
No 7
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=71.06 E-value=8.8 Score=24.35 Aligned_cols=30 Identities=17% Similarity=0.153 Sum_probs=26.3
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCC
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQG 132 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G 132 (169)
|++..+..|+.+++.|++++|.+.++.+.-
T Consensus 24 ~~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 24 NPEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 678899999999999999999999998744
No 8
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=64.88 E-value=7.9 Score=24.26 Aligned_cols=23 Identities=26% Similarity=0.410 Sum_probs=20.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 108 LERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 108 LsRA~~~L~~gdL~~Avrel~~L 130 (169)
|.-|+.|++-||.+.|-.+|+.+
T Consensus 3 LdLA~ayie~Gd~e~Ar~lL~ev 25 (44)
T TIGR03504 3 LDLARAYIEMGDLEGARELLEEV 25 (44)
T ss_pred hHHHHHHHHcCChHHHHHHHHHH
Confidence 56799999999999999999964
No 9
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=60.33 E-value=41 Score=25.27 Aligned_cols=63 Identities=11% Similarity=-0.024 Sum_probs=43.9
Q ss_pred CCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy17381 102 LNTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLSHAAS 164 (169)
Q Consensus 102 ~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a~a~~ 164 (169)
.|++....++..+...|+++.|+.....+-.-.-.-..-|..-+.......+--+.+..+..+
T Consensus 22 ~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~A 84 (144)
T PRK15359 22 VDPETVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHA 84 (144)
T ss_pred cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 567778889999999999999999988654322224566777777666666666655555444
No 10
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=58.02 E-value=1.3e+02 Score=26.47 Aligned_cols=97 Identities=20% Similarity=0.167 Sum_probs=63.0
Q ss_pred ChHHHHH--HHhCChHHh---------hcCCCCHHHHHHHHHHHHHHHHHh------hccCCCCCchHHHHHHHHHHHhh
Q psy17381 17 DTFVETI--CAAFPSAAL---------SRGVYSEQALRSRFIGVQDSAYRV------ALVPDESASLPLVFLSYLQSLFI 79 (169)
Q Consensus 17 D~~v~~~--l~slp~~a~---------~~GV~t~~~L~~rF~~v~~~~r~~------alvpe~~ggl~~~~~S~l~S~l~ 79 (169)
++-|... +.+||...+ =.|.-++.+++++.+++.+..... .+++.+. +......|...+=
T Consensus 86 ~p~vAaqfgiqsIPtV~af~dGqpVdgF~G~qPesqlr~~ld~~~~~~~e~~~~~~~~~~~~e~---~~~a~~~~~~al~ 162 (304)
T COG3118 86 EPMVAAQFGVQSIPTVYAFKDGQPVDGFQGAQPESQLRQFLDKVLPAEEEEALAEAKELIEAED---FGEAAPLLKQALQ 162 (304)
T ss_pred chhHHHHhCcCcCCeEEEeeCCcCccccCCCCcHHHHHHHHHHhcChHHHHHHHHhhhhhhccc---hhhHHHHHHHHHH
Confidence 3444444 357776321 258899999999999887773332 3344332 1223343433331
Q ss_pred hccCCCCCCccccCCccccccCCCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhH
Q psy17381 80 IRGLAAISPEEIRDEPSAKLNSLNTYEILERARYFVDRSDLLQAVKYMNLLQGGAK 135 (169)
Q Consensus 80 ~~~~~~~~~~e~~~~~~d~~~~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar 135 (169)
. .++ +.+.++-.|+-+++.|+.+.|-.++++++...+
T Consensus 163 ~------~~~-------------~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~ 199 (304)
T COG3118 163 A------APE-------------NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ 199 (304)
T ss_pred h------Ccc-------------cchHHHHHHHHHHHcCChHHHHHHHHhCcccch
Confidence 1 111 456899999999999999999999999988644
No 11
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=56.95 E-value=14 Score=19.93 Aligned_cols=26 Identities=23% Similarity=0.367 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 105 YEILERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 105 ~~vLsRA~~~L~~gdL~~Avrel~~L 130 (169)
++.+..+..+.+.|+.+.|++.++.+
T Consensus 1 ~a~~~~a~~~~~~g~~~~A~~~~~~~ 26 (33)
T PF13174_consen 1 DALYRLARCYYKLGDYDEAIEYFQRL 26 (33)
T ss_dssp HHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHccCHHHHHHHHHHH
Confidence 36677888899999999999988764
No 12
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=54.98 E-value=32 Score=22.99 Aligned_cols=55 Identities=9% Similarity=0.158 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17381 104 TYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALL 159 (169)
Q Consensus 104 ~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~ 159 (169)
..-++..|+-+.+.|+.+.|+..+++++-.+...-.-|+. ||..++..+==+.+.
T Consensus 25 ~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~-a~~~~~l~~y~eAi~ 79 (84)
T PF12895_consen 25 SAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLL-ARCLLKLGKYEEAIK 79 (84)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHH-HHHHHHTT-HHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHHhCCHHHHHH
Confidence 4456778999999999999999999954455566666766 998888765444433
No 13
>PF14863 Alkyl_sulf_dimr: Alkyl sulfatase dimerisation; PDB: 2YHE_C 2CG2_A 2CG3_A 2CFU_A 2CFZ_A.
Probab=53.17 E-value=19 Score=27.99 Aligned_cols=28 Identities=25% Similarity=0.319 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L 130 (169)
+.+.|+.+|+.+++.||..-|+..++.+
T Consensus 69 G~d~vl~~A~~~~~~gd~~wA~~L~d~l 96 (141)
T PF14863_consen 69 GADKVLERAQAALAAGDYQWAAELLDHL 96 (141)
T ss_dssp CHHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 7899999999999999999999999975
No 14
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=44.22 E-value=99 Score=20.90 Aligned_cols=48 Identities=8% Similarity=-0.045 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHccC-ChhH--HHHHHHHHHHHHHHHHH
Q psy17381 105 YEILERARYFVDRSDLLQAVKYMNLLQ-GGAK--AVSQQWIADTLVYLETE 152 (169)
Q Consensus 105 ~~vLsRA~~~L~~gdL~~Avrel~~L~-G~ar--~va~dWl~~AR~rLE~~ 152 (169)
+..+..+..+...|+++.|...++.+. ..|. ....-|..-++......
T Consensus 40 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 90 (119)
T TIGR02795 40 NAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELG 90 (119)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhC
Confidence 344455555666666666666665432 1222 12233555555554443
No 15
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=43.26 E-value=54 Score=17.58 Aligned_cols=24 Identities=8% Similarity=0.171 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
.....+..+...|+.++|.+.+++
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~ 26 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEK 26 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHH
Confidence 456678889999999999998874
No 16
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=42.51 E-value=1.2e+02 Score=30.43 Aligned_cols=29 Identities=21% Similarity=0.477 Sum_probs=22.3
Q ss_pred hHHHHHHHHHhcCC--------------------ChHHHHHHHhCChHH
Q psy17381 3 GWLGLVRAREISKS--------------------DTFVETICAAFPSAA 31 (169)
Q Consensus 3 ~~~~~~~l~~~~~~--------------------D~~v~~~l~slp~~a 31 (169)
||++..+|..++.. |=+++.|++.+|++.
T Consensus 225 GW~~al~L~aLa~~~~~~~~q~~~~LsG~~~~l~dYL~eeVld~Lp~~l 273 (894)
T COG2909 225 GWAAALQLIALALRNNTSAEQSLRGLSGAASHLSDYLVEEVLDRLPPEL 273 (894)
T ss_pred cHHHHHHHHHHHccCCCcHHHHhhhccchHHHHHHHHHHHHHhcCCHHH
Confidence 89998888877544 446778899999864
No 17
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=40.20 E-value=47 Score=20.54 Aligned_cols=28 Identities=18% Similarity=0.290 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHccCCh
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNLLQGG 133 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~L~G~ 133 (169)
....+....+..||++.|++.++.....
T Consensus 3 ~~~~~i~~~i~~g~~~~a~~~~~~~~~~ 30 (58)
T smart00668 3 DERKRIRELILKGDWDEALEWLSSLKPP 30 (58)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHcCHH
Confidence 3466788999999999999999987664
No 18
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=39.14 E-value=55 Score=23.15 Aligned_cols=48 Identities=13% Similarity=0.070 Sum_probs=34.7
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc----C----ChhHHHH----------HHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL----Q----GGAKAVS----------QQWIADTLVYLE 150 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L----~----G~ar~va----------~dWl~~AR~rLE 150 (169)
|+++.+.-|..++..|+.+.|+..+-.+ + |.+|+.+ .+.+.+.|++|-
T Consensus 21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~plv~~~RRkL~ 86 (90)
T PF14561_consen 21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGDPLVSEYRRKLA 86 (90)
T ss_dssp -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence 7899999999999999999999987653 2 3466544 356667777764
No 19
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=39.06 E-value=50 Score=25.81 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHhcCCHHHHHHHHHccCC
Q psy17381 101 SLNTYEILERARYFVDRSDLLQAVKYMNLLQG 132 (169)
Q Consensus 101 ~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G 132 (169)
+..+..+.+.|+..|+.|+.+.|++.++.|..
T Consensus 7 ~~~~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ 38 (142)
T PF13512_consen 7 DKSPQELYQEAQEALQKGNYEEAIKQLEALDT 38 (142)
T ss_pred CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence 34678999999999999999999999998854
No 20
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=36.99 E-value=96 Score=19.41 Aligned_cols=48 Identities=13% Similarity=0.270 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc-CChhHHHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL-QGGAKAVSQQWIADTLVYLET 151 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L-~G~ar~va~dWl~~AR~rLE~ 151 (169)
+.+....++..++..||.+.|+...++. +=.|.. ..-|..-+..+...
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~-~~~~~~~g~~~~~~ 50 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNN-AEAYYNLGLAYMKL 50 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTH-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHh
Confidence 5677888999999999999999998852 222221 23444444444444
No 21
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=35.32 E-value=70 Score=23.83 Aligned_cols=26 Identities=12% Similarity=0.198 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 105 YEILERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 105 ~~vLsRA~~~L~~gdL~~Avrel~~L 130 (169)
+.+...++..++.|+++.|++.+..-
T Consensus 71 ~~~~~~~~~~l~~g~~~~a~~ll~~~ 96 (115)
T PF12793_consen 71 ELLEQQAEELLEQGKYEQALQLLDFD 96 (115)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence 46788999999999999999999943
No 22
>PRK13890 conjugal transfer protein TrbA; Provisional
Probab=35.11 E-value=53 Score=24.52 Aligned_cols=28 Identities=14% Similarity=0.148 Sum_probs=24.0
Q ss_pred HHHHHHccCChhHHHHHHHHHHHHHHHH
Q psy17381 123 AVKYMNLLQGGAKAVSQQWIADTLVYLE 150 (169)
Q Consensus 123 Avrel~~L~G~ar~va~dWl~~AR~rLE 150 (169)
-.+.+..|.+.|.-+...|-+++|.++.
T Consensus 91 ~~~lld~L~~~PA~v~~~~~~~~~~~~~ 118 (120)
T PRK13890 91 FERVAAVLPEHQAFIVKKWGEATRKKLR 118 (120)
T ss_pred HHHHHHHcCCccHHHHHHHHHHHHHHHc
Confidence 4567778999999999999999998763
No 23
>PF07980 SusD: SusD family; InterPro: IPR012944 This domain occurs in several hypothetical proteins. It also occurs in RagB, Q9ZA59 from SWISSPROT, a protein involved in signalling [] and SusD, Q8A1G2 from SWISSPROT, an outer membrane protein involved in nutrient binding [].; PDB: 3IHV_A 3LEW_A 3JQ1_A 3JQ0_A 3NQP_B 3SNX_A 3L22_A 3OTN_A 3IV0_A 3QNK_C ....
Probab=34.95 E-value=87 Score=24.89 Aligned_cols=28 Identities=18% Similarity=0.220 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHccC
Q psy17381 104 TYEILERARYFVDRSDLLQAVKYMNLLQ 131 (169)
Q Consensus 104 ~~~vLsRA~~~L~~gdL~~Avrel~~L~ 131 (169)
.+-.|-+||.+...|+.+.|+..||+++
T Consensus 133 aEvyL~~AEA~~~~g~~~~A~~~lN~vR 160 (266)
T PF07980_consen 133 AEVYLIYAEALARLGNTAEALEYLNQVR 160 (266)
T ss_dssp HHHHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4678999999999999999999999886
No 24
>PF04010 DUF357: Protein of unknown function (DUF357); InterPro: IPR023140 This domain is found in a family of proteins, which have no known function.; PDB: 2OO2_A 2PMR_A.
Probab=34.59 E-value=53 Score=22.80 Aligned_cols=25 Identities=24% Similarity=0.578 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHH
Q psy17381 104 TYEILERARYFVDRSDLLQAVKYMN 128 (169)
Q Consensus 104 ~~~vLsRA~~~L~~gdL~~Avrel~ 128 (169)
..+=++.+++++++||+..|+..++
T Consensus 35 A~~Y~~D~~~fl~~gD~v~Ala~~s 59 (75)
T PF04010_consen 35 AESYLEDGKYFLEKGDYVNALACFS 59 (75)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHH
Confidence 3455778889999999999998775
No 25
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=33.58 E-value=1.6e+02 Score=23.31 Aligned_cols=65 Identities=9% Similarity=0.062 Sum_probs=51.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLSHAASVSF 167 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a~a~~~sl 167 (169)
+.+.|.+.|-...+.|+++.|.+.-..|-=-..-.+.-|+.=+=.+....+--+.|.+++-+..|
T Consensus 34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L 98 (157)
T PRK15363 34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI 98 (157)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 68899999999999999999999998876555556677887777777777777777777665543
No 26
>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex. It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.
Probab=32.96 E-value=1.2e+02 Score=28.87 Aligned_cols=99 Identities=12% Similarity=0.105 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhhhccCCCCCCccccCCccccccCCCHHHHHHHHHHHHhcC
Q psy17381 39 EQALRSRFIGVQDSAYRVALVPDESASLPLVFLSYLQSLFIIRGLAAISPEEIRDEPSAKLNSLNTYEILERARYFVDRS 118 (169)
Q Consensus 39 ~~~L~~rF~~v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~~~~~~~~e~~~~~~d~~~~~d~~~vLsRA~~~L~~g 118 (169)
..-|.++|...-.....-.+....-||.+. ....+.+.+.++-..+....+. + ....|..-+=+..=|+|+.|
T Consensus 53 r~~LE~qf~~~v~~~v~~~~~~A~~gg~p~-~~~~V~afv~~~~~~~~~~~~~-~-----l~~~~~~p~Wa~Iyy~LR~G 125 (613)
T PF04097_consen 53 RRYLEKQFLQYVEETVAKNPNEAQLGGVPS-TYNKVRAFVNVRLKRPGAWTDS-G-----LEIVNGDPIWALIYYCLRCG 125 (613)
T ss_dssp HHHHHHHHHHHHHHHHCCCTTS----SSS--HHHHHHHHHHCTTBESSCBSST-T-------EETTEEHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHHhCchhhcccCCCC-cHHHHHHHHHHHhcccCCCccc-c-----cccCCCCccHHHHHHHHhcC
Confidence 445677777543333333332323456666 6677777776655433211100 0 11124456778888999999
Q ss_pred CHHHHHHHH----HccCC---hhHHHHHHHHHH
Q psy17381 119 DLLQAVKYM----NLLQG---GAKAVSQQWIAD 144 (169)
Q Consensus 119 dL~~Avrel----~~L~G---~ar~va~dWl~~ 144 (169)
+++.|+.++ +.++- .=......|+..
T Consensus 126 ~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s 158 (613)
T PF04097_consen 126 DYDEALEVANENRNQFQKIERSFPTYLKAYASS 158 (613)
T ss_dssp -HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTT
T ss_pred CHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhC
Confidence 999999999 33322 233456777653
No 27
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=31.22 E-value=94 Score=16.82 Aligned_cols=24 Identities=13% Similarity=0.224 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
.-..++..+...|+.+.|+...++
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~ 26 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQR 26 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCchHHHHHHHH
Confidence 456788999999999999988764
No 28
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=30.48 E-value=71 Score=15.23 Aligned_cols=24 Identities=13% Similarity=0.278 Sum_probs=18.6
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
.....+..+...|+.+.|+..+.+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~ 26 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEK 26 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHH
Confidence 345677888889999999887764
No 29
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=30.30 E-value=2.2e+02 Score=20.90 Aligned_cols=25 Identities=16% Similarity=0.121 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 105 YEILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 105 ~~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
.+-|..|+.++..||++.|...++.
T Consensus 49 ~A~l~lA~~~~~~g~~~~A~~~l~~ 73 (145)
T PF09976_consen 49 LAALQLAKAAYEQGDYDEAKAALEK 73 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 3445556666666666666666654
No 30
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=30.10 E-value=2e+02 Score=20.25 Aligned_cols=28 Identities=21% Similarity=0.218 Sum_probs=23.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L 130 (169)
+.+..+.++..++..|+.+.|.+.+..+
T Consensus 16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~ 43 (135)
T TIGR02552 16 QLEQIYALAYNLYQQGRYDEALKLFQLL 43 (135)
T ss_pred hHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 5677889999999999999999888764
No 31
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=30.02 E-value=60 Score=19.73 Aligned_cols=24 Identities=8% Similarity=0.165 Sum_probs=18.8
Q ss_pred HHHHccCChhHHHHHHHHHHHHHH
Q psy17381 125 KYMNLLQGGAKAVSQQWIADTLVY 148 (169)
Q Consensus 125 rel~~L~G~ar~va~dWl~~AR~r 148 (169)
.+|.+..|-.+.=...|...+|+|
T Consensus 17 ~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 17 EELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp HHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred HHHHHHcCCCHHHHHHHHHHhHcc
Confidence 345566788888899999999987
No 32
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=28.78 E-value=82 Score=19.73 Aligned_cols=20 Identities=20% Similarity=0.190 Sum_probs=17.0
Q ss_pred CCCHHHHHHHHHHHHHHHHH
Q psy17381 36 VYSEQALRSRFIGVQDSAYR 55 (169)
Q Consensus 36 V~t~~~L~~rF~~v~~~~r~ 55 (169)
-|++.+|..||.++-+.+++
T Consensus 16 YP~ESELskr~rrLIRaa~k 35 (44)
T PF08134_consen 16 YPTESELSKRIRRLIRAARK 35 (44)
T ss_pred cCcHHHHHHHHHHHHHHHHH
Confidence 47899999999998887764
No 33
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=28.76 E-value=1e+02 Score=22.03 Aligned_cols=40 Identities=18% Similarity=0.247 Sum_probs=29.0
Q ss_pred cCCChHHHHHHHhCChHH--------hhcCCC--CHHHHHHHHHHHHHHH
Q psy17381 14 SKSDTFVETICAAFPSAA--------LSRGVY--SEQALRSRFIGVQDSA 53 (169)
Q Consensus 14 ~~~D~~v~~~l~slp~~a--------~~~GV~--t~~~L~~rF~~v~~~~ 53 (169)
-.+..+|..++.+||+.- ...... |.++|..++..-+...
T Consensus 64 i~d~~~v~~iL~~Lp~~y~~~~~~i~~~~~~~~~t~~el~~~L~~~E~~~ 113 (119)
T PF14223_consen 64 ISDEDLVSKILRSLPPSYDTFVTAIRNSKDLPKMTLEELISRLLAEEMRL 113 (119)
T ss_pred ccchhHHHHHHhcCCchhHHHHHHHHhcCCCCcCCHHHHHHHHHHHHHHH
Confidence 356799999999999951 133566 8999998887655443
No 34
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=28.71 E-value=75 Score=20.13 Aligned_cols=27 Identities=19% Similarity=0.198 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
++.....++.-+...|+.+.|.+.++.
T Consensus 28 ~~~~~~~~a~~~~~~g~~~~A~~~l~~ 54 (73)
T PF13371_consen 28 DPELWLQRARCLFQLGRYEEALEDLER 54 (73)
T ss_pred cchhhHHHHHHHHHhccHHHHHHHHHH
Confidence 677889999999999999999999996
No 35
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=28.07 E-value=1.8e+02 Score=22.91 Aligned_cols=46 Identities=13% Similarity=0.077 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHccCC---hhHHHHHHHHHHHHHHH
Q psy17381 104 TYEILERARYFVDRSDLLQAVKYMNLLQG---GAKAVSQQWIADTLVYL 149 (169)
Q Consensus 104 ~~~vLsRA~~~L~~gdL~~Avrel~~L~G---~ar~va~dWl~~AR~rL 149 (169)
-.+.+..+++|.+.||++.|++....... .+...+.=|+.-.|.-+
T Consensus 36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i 84 (177)
T PF10602_consen 36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAI 84 (177)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHH
Confidence 35778899999999999999999886533 34455444444444433
No 36
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=26.85 E-value=2.5e+02 Score=23.15 Aligned_cols=31 Identities=19% Similarity=0.188 Sum_probs=27.6
Q ss_pred CCCHHHHHHHHHHHHhcCCHHHHHHHHHccC
Q psy17381 101 SLNTYEILERARYFVDRSDLLQAVKYMNLLQ 131 (169)
Q Consensus 101 ~~d~~~vLsRA~~~L~~gdL~~Avrel~~L~ 131 (169)
+.++......|..+++.||.++|++..+.+.
T Consensus 29 ~~~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~ 59 (243)
T PRK10866 29 DNPPSEIYATAQQKLQDGNWKQAITQLEALD 59 (243)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3578889999999999999999999999763
No 37
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=26.59 E-value=1.1e+02 Score=16.34 Aligned_cols=23 Identities=13% Similarity=0.291 Sum_probs=19.1
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHc
Q psy17381 107 ILERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 107 vLsRA~~~L~~gdL~~Avrel~~ 129 (169)
....+..+...||.+.|...++.
T Consensus 4 ~~~lg~~y~~~~~~~~A~~~~~~ 26 (34)
T PF13181_consen 4 YYNLGKIYEQLGDYEEALEYFEK 26 (34)
T ss_dssp HHHHHHHHHHTTSHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHH
Confidence 45677888999999999998874
No 38
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=26.50 E-value=1e+02 Score=17.49 Aligned_cols=22 Identities=18% Similarity=0.297 Sum_probs=20.3
Q ss_pred CHHHHHHHHHHHHhcCCHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAV 124 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Av 124 (169)
|+++....+..+...||.+.|.
T Consensus 12 n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 12 NAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred CHHHHHHHHHHHHHCcCHHhhc
Confidence 7889999999999999999985
No 39
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=26.32 E-value=1.4e+02 Score=30.29 Aligned_cols=28 Identities=29% Similarity=0.275 Sum_probs=26.3
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L 130 (169)
|++.+...++.++..||.+.|.+.++.+
T Consensus 61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l 88 (1157)
T PRK11447 61 NPDVIAARFRLLLRQGDSDGAQKLLDRL 88 (1157)
T ss_pred CHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 7888999999999999999999999976
No 40
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=25.39 E-value=2.5e+02 Score=19.75 Aligned_cols=48 Identities=13% Similarity=0.120 Sum_probs=35.9
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHc-cCChh-HHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNL-LQGGA-KAVSQQWIADTLVYLE 150 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~-L~G~a-r~va~dWl~~AR~rLE 150 (169)
+++.....+..+...|+.+.|+..++. ++-.| ......+.+.+...+|
T Consensus 84 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~ 133 (135)
T TIGR02552 84 DPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSELKERAEAMLE 133 (135)
T ss_pred ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHh
Confidence 566778889999999999999999985 44433 3455667777777666
No 41
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=25.11 E-value=5.4e+02 Score=24.33 Aligned_cols=110 Identities=10% Similarity=0.061 Sum_probs=63.2
Q ss_pred hcCCCCHHHHHHHHHHHHHHH------HHhhccCCCCCchHHHHHHHHHHHhhhccCCCCCCccccCCccccccC-CCHH
Q psy17381 33 SRGVYSEQALRSRFIGVQDSA------YRVALVPDESASLPLVFLSYLQSLFIIRGLAAISPEEIRDEPSAKLNS-LNTY 105 (169)
Q Consensus 33 ~~GV~t~~~L~~rF~~v~~~~------r~~alvpe~~ggl~~~~~S~l~S~l~~~~~~~~~~~e~~~~~~d~~~~-~d~~ 105 (169)
+=+-++.+++..+...+...- ..+.++-..++|-+..++..+.-.+.+. .+.++.++.. ..-+ .+.+
T Consensus 172 ~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~-~~~It~~~V~-----~~lg~~~~~ 245 (535)
T PRK08451 172 RFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYC-KNAITESKVA-----DMLGLLDPS 245 (535)
T ss_pred EcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc-CCCCCHHHHH-----HHhCCCCHH
Confidence 334577888888877544321 1112233334455666778775444443 2334443221 1112 2333
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHccCCh-hHHHHHHHHHHHHHHH
Q psy17381 106 EILERARYFVDRSDLLQAVKYMNLLQGG-AKAVSQQWIADTLVYL 149 (169)
Q Consensus 106 ~vLsRA~~~L~~gdL~~Avrel~~L~G~-ar~va~dWl~~AR~rL 149 (169)
.|..-.+ ++.++|.+.+.+.++.|.|+ +..+..+++...|..+
T Consensus 246 ~I~~li~-ai~~~d~~~a~~~l~~L~g~~~~~~l~~l~~~l~~~~ 289 (535)
T PRK08451 246 KLEDFFQ-AILNQDKEKLFELLKELEDYEAEMVLDEMMLFLKEKF 289 (535)
T ss_pred HHHHHHH-HHHhcCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence 4434444 77789999999999999884 6677788777776443
No 42
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.95 E-value=6.1e+02 Score=24.19 Aligned_cols=114 Identities=11% Similarity=0.086 Sum_probs=65.2
Q ss_pred CCCCHHHHHHHHHHHHHHHH------HhhccCCCCCchHHHHHHHHHHHhhhccCCCCCCccccCCccccccCCCHHHHH
Q psy17381 35 GVYSEQALRSRFIGVQDSAY------RVALVPDESASLPLVFLSYLQSLFIIRGLAAISPEEIRDEPSAKLNSLNTYEIL 108 (169)
Q Consensus 35 GV~t~~~L~~rF~~v~~~~r------~~alvpe~~ggl~~~~~S~l~S~l~~~~~~~~~~~e~~~~~~d~~~~~d~~~vL 108 (169)
.-++..++..+...+...-- .+.++=..++|=+..+++.|.-...+...+.++.++. ....+...+..+
T Consensus 175 ~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v-----~~llg~~~~~~i 249 (584)
T PRK14952 175 RLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRA-----LGLLGATDVALI 249 (584)
T ss_pred eCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHH-----HHHHCCCCHHHH
Confidence 34677777777665433211 1112222233444457777766554432222332211 111121222333
Q ss_pred HHHHHHHhcCCHHHHHHHHHcc--CC-hhHHHHHHHHHHHHHHHHHHH
Q psy17381 109 ERARYFVDRSDLLQAVKYMNLL--QG-GAKAVSQQWIADTLVYLETET 153 (169)
Q Consensus 109 sRA~~~L~~gdL~~Avrel~~L--~G-~ar~va~dWl~~AR~rLE~~q 153 (169)
...=.++..+|...|++.++.+ .| .+..+..+.+...|.-+-++.
T Consensus 250 ~~lv~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~RdLll~k~ 297 (584)
T PRK14952 250 DDAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFRDLIVLQA 297 (584)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhh
Confidence 3444488999999999999976 35 688999999999999887766
No 43
>PF04418 DUF543: Domain of unknown function (DUF543); InterPro: IPR007512 This family of short eukaryotic proteins has no known function. Most of the members of this family are only 80 amino acid residues long. However the Arabidopsis homologue is over 300 residues long. These proteins contain a conserved N-terminal cysteine and a conserved motif GXGXGXG in the carboxy terminal half that may be functionally important.
Probab=24.09 E-value=2e+02 Score=20.08 Aligned_cols=38 Identities=21% Similarity=0.282 Sum_probs=27.5
Q ss_pred CCCHHHHHHHHHH-HHHHHHHhhccCCCCCchHHHHHHHHHHHhhhcc
Q psy17381 36 VYSEQALRSRFIG-VQDSAYRVALVPDESASLPLVFLSYLQSLFIIRG 82 (169)
Q Consensus 36 V~t~~~L~~rF~~-v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~ 82 (169)
++++..+.++|++ +...+++..+ |+ +..-++|.++|++
T Consensus 12 ~~se~~~~~kwD~cl~~~l~k~~~------G~---~~G~~~s~l~frr 50 (75)
T PF04418_consen 12 PPSEDELGEKWDRCLSDTLVKTGL------GF---GIGVVFSLLFFRR 50 (75)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHhh------hh---hHHHHHHHHHHcc
Confidence 7889999999996 6666777633 32 3356778888876
No 44
>PF12854 PPR_1: PPR repeat
Probab=24.04 E-value=1.1e+02 Score=17.38 Aligned_cols=21 Identities=5% Similarity=0.078 Sum_probs=17.6
Q ss_pred HHHHHHhcCCHHHHHHHHHcc
Q psy17381 110 RARYFVDRSDLLQAVKYMNLL 130 (169)
Q Consensus 110 RA~~~L~~gdL~~Avrel~~L 130 (169)
=...+-+.|+++.|.+.++..
T Consensus 13 lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 13 LIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHhC
Confidence 356788999999999998765
No 45
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=23.99 E-value=97 Score=24.57 Aligned_cols=29 Identities=17% Similarity=0.234 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccC
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQ 131 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~ 131 (169)
+...+...|..+++.||...|++.++.+.
T Consensus 4 ~~~~lY~~a~~~~~~g~y~~Ai~~f~~l~ 32 (203)
T PF13525_consen 4 TAEALYQKALEALQQGDYEEAIKLFEKLI 32 (203)
T ss_dssp -HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 67899999999999999999999999764
No 46
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=23.83 E-value=3.6e+02 Score=21.08 Aligned_cols=51 Identities=22% Similarity=0.266 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHhcCCHHHHHHHHHcc-CChhH--HHHHHHHHHHHHHHHH
Q psy17381 101 SLNTYEILERARYFVDRSDLLQAVKYMNLL-QGGAK--AVSQQWIADTLVYLET 151 (169)
Q Consensus 101 ~~d~~~vLsRA~~~L~~gdL~~Avrel~~L-~G~ar--~va~dWl~~AR~rLE~ 151 (169)
...++..+..++.++..|+.+.|+..++.+ +..|. ....-|..-+..+...
T Consensus 30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~ 83 (235)
T TIGR03302 30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKS 83 (235)
T ss_pred cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhc
Confidence 457889999999999999999999999854 33332 1223355555554443
No 47
>smart00073 HPT Histidine Phosphotransfer domain. Contains an active histidine residue that mediates phosphotransfer reactions. Domain detected only in eubacteria. This alignment is an extension to that shown in the Cell structure paper.
Probab=23.65 E-value=1.4e+02 Score=19.75 Aligned_cols=48 Identities=23% Similarity=0.178 Sum_probs=33.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLE 150 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE 150 (169)
+....+...+..+..+|++...+.+..|+|.+.-+-..=+.+.=..+|
T Consensus 10 ~~~~~l~~l~~~~~~~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE 57 (87)
T smart00073 10 SLEEGLLELEKALDAQDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLE 57 (87)
T ss_pred HHHHHHHHHHhCcCHhHHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHH
Confidence 344567777788888999999999999999988654443433333333
No 48
>PF10938 YfdX: YfdX protein; InterPro: IPR021236 YfdX is a protein found in Proteobacteria of unknown function. The protein coding for this gene is regulated by EvgA in Escherichia coli []. ; PDB: 3DZA_C.
Probab=23.47 E-value=55 Score=25.61 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=25.3
Q ss_pred HHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHH
Q psy17381 108 LERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQW 141 (169)
Q Consensus 108 LsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dW 141 (169)
+..|+.+|.+||-++|...++.-+|.-..+..+|
T Consensus 6 i~~Ar~aL~~g~~~~A~~~L~~A~~~l~~~~~~~ 39 (155)
T PF10938_consen 6 IQKARLALFQGDTDEAKKLLEDAQGKLDAARADD 39 (155)
T ss_dssp HHHHHHHHCTT-HHHHHHHHHHHHHHHTS-HHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 5689999999999999999987666555444444
No 49
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=23.08 E-value=1.2e+02 Score=22.36 Aligned_cols=28 Identities=14% Similarity=0.013 Sum_probs=23.3
Q ss_pred HHHHHHccCChhHHHHHHHHHHHHHHHH
Q psy17381 123 AVKYMNLLQGGAKAVSQQWIADTLVYLE 150 (169)
Q Consensus 123 Avrel~~L~G~ar~va~dWl~~AR~rLE 150 (169)
.+.|+...-|-+|+.+.||++.|+..|+
T Consensus 35 SlsEIAe~~~iSRqaV~d~ikr~~~~L~ 62 (101)
T PF04297_consen 35 SLSEIAEELGISRQAVYDSIKRAEKKLE 62 (101)
T ss_dssp -HHHHHHHCTS-HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4678888889999999999999999885
No 50
>PF09920 DUF2150: Uncharacterized protein conserved in archaea (DUF2150); InterPro: IPR014518 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.08 E-value=4.3e+02 Score=21.76 Aligned_cols=104 Identities=14% Similarity=0.163 Sum_probs=64.8
Q ss_pred HhhcCCCCHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHhhhcc--CC-CCCCccccCCccccccCCCHHHH
Q psy17381 31 ALSRGVYSEQALRSRFIGVQDSAYRVALVPDESASLPLVFLSYLQSLFIIRG--LA-AISPEEIRDEPSAKLNSLNTYEI 107 (169)
Q Consensus 31 a~~~GV~t~~~L~~rF~~v~~~~r~~alvpe~~ggl~~~~~S~l~S~l~~~~--~~-~~~~~e~~~~~~d~~~~~d~~~v 107 (169)
+.++|-+|.+.-.+-...+...+.. =+|..+ .-...++-.+|..|..-- -. -+.|+ + ..+.+...+
T Consensus 53 ~~~~~~l~keeAl~~L~~v~eIVl~--ev~~~~-Ed~~~~i~~vQ~SL~~vf~Aae~yi~g~-~-------~~~~~i~~l 121 (190)
T PF09920_consen 53 AYQNGELSKEEALEELEEVREIVLS--EVDFDD-EDKDMMIDSVQTSLVVVFAAAEEYIAGG-Y-------DEEADIEEL 121 (190)
T ss_pred HHHcCCCCHHHHHHHHHHHHHHHhc--CCCCCc-hHHHHHHHHHHHHHHHHHHHHHHHHcCC-C-------CCcCCHHHH
Confidence 3589999999988888888776642 233222 222223334443332211 00 01222 0 013488899
Q ss_pred HHHHHHHHhcCCHHHHHHHHHc-----cCCh----------hHHHHHHHHHHH
Q psy17381 108 LERARYFVDRSDLLQAVKYMNL-----LQGG----------AKAVSQQWIADT 145 (169)
Q Consensus 108 LsRA~~~L~~gdL~~Avrel~~-----L~G~----------ar~va~dWl~~A 145 (169)
+..|..+=+.+|++.|+.++.| +.|. +-.+..+|+..-
T Consensus 122 vk~A~~aE~~edle~Al~~~a~~GA~Vi~G~~l~~~~~~d~~~glvaEWldGi 174 (190)
T PF09920_consen 122 VKAAVEAEAEEDLEAALGYAAQIGARVIDGESLPEKYVEDLEYGLVAEWLDGI 174 (190)
T ss_pred HHHHHHHhhccCHHHHHHHHHHhCceeeCCCcCCHhhcCCCCchHHHHHHHHH
Confidence 9999999999999999999986 3553 336788899764
No 51
>PF10825 DUF2752: Protein of unknown function (DUF2752); InterPro: IPR021215 This family is conserved in bacteria. Many members are annotated as being putative membrane proteins.
Probab=22.65 E-value=1.1e+02 Score=19.60 Aligned_cols=19 Identities=26% Similarity=0.364 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCHHHHHHH
Q psy17381 108 LERARYFVDRSDLLQAVKY 126 (169)
Q Consensus 108 LsRA~~~L~~gdL~~Avre 126 (169)
+.|+=.++-+||+.+|.++
T Consensus 17 ~tRa~~~ll~gd~~~A~~~ 35 (52)
T PF10825_consen 17 MTRAFIALLHGDFAAAFRY 35 (52)
T ss_pred HHHHHHHHHCCCHHHHHHH
Confidence 5799999999999999875
No 52
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=22.29 E-value=1.4e+02 Score=22.34 Aligned_cols=35 Identities=9% Similarity=0.098 Sum_probs=26.4
Q ss_pred HHHH-HhcCCChHHHHHHHhCChHHhhcCCCCHHHH
Q psy17381 8 VRAR-EISKSDTFVETICAAFPSAALSRGVYSEQAL 42 (169)
Q Consensus 8 ~~l~-~~~~~D~~v~~~l~slp~~a~~~GV~t~~~L 42 (169)
-.+| ++..+.+.-..+++.|-+.-.+-||+|.++|
T Consensus 66 E~vK~K~~~~~~~y~~~lqeikp~l~ELGI~t~EeL 101 (103)
T cd00923 66 EAIKDKCGAHKEIYPYILQEIKPTLKELGISTPEEL 101 (103)
T ss_pred HHHHHHccCchhhHHHHHHHHhHHHHHHCCCCHHHh
Confidence 3455 3333556778889999998889999999887
No 53
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=21.23 E-value=1.9e+02 Score=22.74 Aligned_cols=48 Identities=10% Similarity=0.126 Sum_probs=42.6
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLE 150 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE 150 (169)
||-=|+--....+-+...+.....+++.++.=..++..|..+++...|
T Consensus 24 DPILil~TiNe~ll~~~~~aq~~~l~~fk~elE~~~~~w~~dak~kAE 71 (144)
T PF11657_consen 24 DPILILQTINERLLEDSAKAQQEQLDQFKEELEEIASRWGEDAKEKAE 71 (144)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788888888888888888888888899999999999999999998875
No 54
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=21.22 E-value=1.3e+02 Score=26.54 Aligned_cols=28 Identities=18% Similarity=0.241 Sum_probs=24.1
Q ss_pred CCHHHHH-HHHHHHHhcCCHHHHHHHHHc
Q psy17381 102 LNTYEIL-ERARYFVDRSDLLQAVKYMNL 129 (169)
Q Consensus 102 ~d~~~vL-sRA~~~L~~gdL~~Avrel~~ 129 (169)
-|+++-. +-.+.+++.||+++|++.|+.
T Consensus 254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldE 282 (303)
T PRK10564 254 NDTESYFNQAIKQAVKKGDVDKALKLLDE 282 (303)
T ss_pred chHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 4777777 777999999999999999984
No 55
>COG4519 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.99 E-value=76 Score=22.92 Aligned_cols=20 Identities=15% Similarity=0.091 Sum_probs=15.0
Q ss_pred HHHHccCChhHHHHHHHHHH
Q psy17381 125 KYMNLLQGGAKAVSQQWIAD 144 (169)
Q Consensus 125 rel~~L~G~ar~va~dWl~~ 144 (169)
-++-.++||||+.++|=|+.
T Consensus 26 P~lm~~TGwPRRT~QDvikA 45 (95)
T COG4519 26 PELMAATGWPRRTAQDVIKA 45 (95)
T ss_pred HHHHHHcCCchhHHHHHHHh
Confidence 34556789999999887653
No 56
>KOG2076|consensus
Probab=20.96 E-value=2.6e+02 Score=28.27 Aligned_cols=58 Identities=12% Similarity=0.138 Sum_probs=47.3
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHcc-CChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLL-QGGAKAVSQQWIADTLVYLETETAAKALLS 160 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L-~G~ar~va~dWl~~AR~rLE~~qa~~~L~a 160 (169)
+++=++.-|+.+++.|++..|++++..+ .+.+-.-+-=|..-||.+.+.+.-=+++..
T Consensus 413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~ 471 (895)
T KOG2076|consen 413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEF 471 (895)
T ss_pred hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHH
Confidence 7888999999999999999999999986 555556688899999999876554444443
No 57
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=20.70 E-value=2.6e+02 Score=25.27 Aligned_cols=58 Identities=12% Similarity=0.166 Sum_probs=46.6
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIADTLVYLETETAAKALLS 160 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~AR~rLE~~qa~~~L~a 160 (169)
|.+-+.-.|++++..|+.+.|+....+..--+---...|..=|+.+....+-=++|.+
T Consensus 233 d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALla 290 (395)
T PF09295_consen 233 DSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLA 290 (395)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence 5777788999999999999999999887666666778899999999887766555543
No 58
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=20.66 E-value=97 Score=22.65 Aligned_cols=31 Identities=16% Similarity=0.158 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHccCCh
Q psy17381 103 NTYEILERARYFVDRSDLLQAVKYMNLLQGG 133 (169)
Q Consensus 103 d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ 133 (169)
+.+.-++|.+.|+..+|-+.++.++..++-.
T Consensus 76 ~i~~sl~rl~~~i~~~dk~~~l~el~~lk~~ 106 (121)
T PF14276_consen 76 NIDISLARLKGYIEAKDKSESLAELAELKEL 106 (121)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 6778899999999999999999999877643
No 59
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=20.31 E-value=1.1e+02 Score=26.28 Aligned_cols=41 Identities=15% Similarity=0.272 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHhcCCHHHHHHHHHccCChhHHHHHHHHHH
Q psy17381 102 LNTYEILERARYFVDRSDLLQAVKYMNLLQGGAKAVSQQWIAD 144 (169)
Q Consensus 102 ~d~~~vLsRA~~~L~~gdL~~Avrel~~L~G~ar~va~dWl~~ 144 (169)
.-++.+.+.+...|+.||++.|++.++.+. .+.....|.++
T Consensus 32 ~p~~~LY~~g~~~L~~gn~~~A~~~fe~l~--~~~p~s~~~~q 72 (254)
T COG4105 32 LPASELYNEGLTELQKGNYEEAIKYFEALD--SRHPFSPYSEQ 72 (254)
T ss_pred CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH--HcCCCCcccHH
Confidence 467799999999999999999999999875 33334444433
Done!