Query 034275
Match_columns 99
No_of_seqs 106 out of 724
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 11:41:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034275.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034275hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3801 Uncharacterized conser 100.0 7E-29 1.5E-33 157.2 11.1 88 6-94 1-88 (94)
2 PF13232 Complex1_LYR_1: Compl 99.8 9.9E-19 2.1E-23 103.8 6.9 61 12-72 1-61 (61)
3 PF05347 Complex1_LYR: Complex 99.7 2.3E-17 5E-22 96.8 7.0 58 12-69 1-58 (59)
4 KOG4620 Uncharacterized conser 99.2 8.8E-11 1.9E-15 72.1 7.6 66 8-74 5-72 (80)
5 KOG3426 NADH:ubiquinone oxidor 99.1 5.5E-10 1.2E-14 73.8 7.0 82 2-83 11-104 (124)
6 KOG3466 NADH:ubiquinone oxidor 98.5 7.3E-07 1.6E-11 61.1 6.6 64 8-72 10-74 (157)
7 KOG4100 Uncharacterized conser 98.3 5.8E-06 1.3E-10 54.9 8.5 77 5-83 3-79 (125)
8 PF13233 Complex1_LYR_2: Compl 98.2 9E-06 2E-10 52.3 7.8 66 14-79 1-77 (104)
9 PF04716 ETC_C1_NDUFA5: ETC co 96.0 0.057 1.2E-06 31.6 6.5 52 10-61 3-55 (57)
10 PF04018 DUF368: Domain of unk 57.0 30 0.00066 25.9 5.0 46 2-47 6-51 (257)
11 COG1647 Esterase/lipase [Gener 56.6 9.2 0.0002 28.6 2.1 71 3-78 112-187 (243)
12 KOG3365 NADH:ubiquinone oxidor 42.9 1.1E+02 0.0024 21.1 7.3 64 8-71 47-120 (145)
13 KOG2228 Origin recognition com 42.2 1.2E+02 0.0025 24.4 6.2 30 1-30 198-227 (408)
14 KOG2908 26S proteasome regulat 39.2 1.2E+02 0.0027 24.1 6.0 68 15-82 75-160 (380)
15 KOG0810 SNARE protein Syntaxin 36.9 1E+02 0.0022 23.7 5.1 56 11-66 122-180 (297)
16 PF10436 BCDHK_Adom3: Mitochon 36.2 1.4E+02 0.0031 20.5 8.8 60 7-68 51-113 (164)
17 TIGR00496 frr ribosome recycli 32.3 1.8E+02 0.0039 20.4 7.7 26 2-27 92-117 (176)
18 PRK10635 bacterioferritin; Pro 31.7 1.3E+02 0.0028 20.6 4.6 32 12-43 95-126 (158)
19 PF01765 RRF: Ribosome recycli 31.3 1.7E+02 0.0038 20.0 6.3 25 2-26 83-107 (165)
20 PF06694 Plant_NMP1: Plant nuc 29.6 2.1E+02 0.0045 22.4 5.7 60 8-77 251-316 (325)
21 KOG2652 RNA polymerase II tran 29.6 2E+02 0.0043 22.8 5.7 46 13-72 6-51 (348)
22 TIGR00188 rnpA ribonuclease P 27.4 62 0.0013 20.5 2.3 19 32-50 55-73 (105)
23 PF15076 DUF4543: Domain of un 27.2 1.5E+02 0.0033 18.0 3.8 21 19-39 15-42 (75)
24 PRK01903 rnpA ribonuclease P; 26.3 54 0.0012 22.0 1.9 23 28-50 61-83 (133)
25 PRK05629 hypothetical protein; 26.3 2.3E+02 0.0051 21.1 5.6 59 15-73 108-167 (318)
26 COG0233 Frr Ribosome recycling 25.9 2.6E+02 0.0056 20.2 6.3 46 2-48 103-148 (187)
27 PRK00927 tryptophanyl-tRNA syn 25.4 2.3E+02 0.005 21.7 5.4 37 37-75 284-320 (333)
28 PF00825 Ribonuclease_P: Ribon 25.1 1.1E+02 0.0025 19.3 3.2 21 31-51 56-76 (111)
29 KOG2713 Mitochondrial tryptoph 25.0 1.7E+02 0.0037 22.9 4.5 62 11-74 257-333 (347)
30 KOG0493 Transcription factor E 24.7 90 0.0019 24.1 3.0 24 33-56 253-276 (342)
31 PF13743 Thioredoxin_5: Thiore 23.7 2.5E+02 0.0054 19.3 5.5 47 23-70 72-119 (176)
32 PRK14865 rnpA ribonuclease P; 23.0 86 0.0019 20.3 2.4 18 33-50 60-77 (116)
33 PRK00396 rnpA ribonuclease P; 22.8 89 0.0019 20.9 2.4 18 33-50 62-79 (130)
34 KOG2728 Uncharacterized conser 22.7 42 0.00091 25.7 0.9 46 35-83 205-256 (302)
35 PF08657 DASH_Spc34: DASH comp 22.5 3.4E+02 0.0073 20.4 5.7 53 16-71 161-213 (259)
36 PF07021 MetW: Methionine bios 22.4 1.2E+02 0.0027 21.8 3.3 48 2-52 79-130 (193)
37 COG0362 Gnd 6-phosphogluconate 22.4 2.1E+02 0.0045 23.5 4.8 43 33-75 367-409 (473)
38 PRK13452 atpC F0F1 ATP synthas 21.6 2.7E+02 0.0058 18.9 5.2 46 36-84 97-143 (145)
39 PRK00499 rnpA ribonuclease P; 21.4 86 0.0019 20.1 2.1 19 32-50 52-70 (114)
40 PF08990 Docking: Erythronolid 20.3 1.3E+02 0.0029 14.8 2.8 23 52-74 2-24 (27)
No 1
>KOG3801 consensus Uncharacterized conserved protein BCN92 [RNA processing and modification]
Probab=99.96 E-value=7e-29 Score=157.25 Aligned_cols=88 Identities=42% Similarity=0.701 Sum_probs=84.1
Q ss_pred CCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 034275 6 QAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPKV 85 (99)
Q Consensus 6 ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~~~ 85 (99)
|+++++++|++|||.+||++++||+||+|+|+.+++|+.|++|++++||.+|..++++|+++|+.++||++|+.||+. +
T Consensus 1 ~~~~sr~qvlsLyr~~lr~s~qfp~YNyReY~~RrtRD~Fr~Nkn~~Dp~e~~~l~~eakk~LevikRQ~ii~~lY~~-~ 79 (94)
T KOG3801|consen 1 PQMVSRRQVLSLYRNLLRESKQFPQYNYREYFQRRTRDTFRANKNVCDPAEIKKLYKEAKKQLEVIKRQSIIGQLYPK-D 79 (94)
T ss_pred CCcccHHHHHHHHHHHHHHHhhCCcccHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-c
Confidence 356789999999999999999999999999999999999999999999999999999999999999999999999998 9
Q ss_pred cceeeccCC
Q 034275 86 KSIMELENP 94 (99)
Q Consensus 86 ~~vve~~~~ 94 (99)
|+|||.+..
T Consensus 80 klIvE~k~~ 88 (94)
T KOG3801|consen 80 KLIVEVKKK 88 (94)
T ss_pred ceeeecccc
Confidence 999997643
No 2
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=99.78 E-value=9.9e-19 Score=103.83 Aligned_cols=61 Identities=48% Similarity=0.851 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034275 12 PEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72 (99)
Q Consensus 12 ~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lk 72 (99)
++||+|||++||+++.||++++++|++++||+.|+.|++++||++|+.++++|+..|+.|+
T Consensus 1 ~~vL~LYR~lLR~~~~~~~~~~r~~~~~~ir~~Fr~~~~~td~~~i~~~l~~~~~~L~~l~ 61 (61)
T PF13232_consen 1 QQVLSLYRQLLREASKFPDYNFRSYFRRRIRDRFRRNKNVTDPEKIAKLLKEGRKELELLR 61 (61)
T ss_pred ChHHHHHHHHHHHhhhcCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 3799999999999999999999999999999999999999999999999999999998873
No 3
>PF05347 Complex1_LYR: Complex 1 protein (LYR family); InterPro: IPR008011 This family of short proteins includes proteins from the NADH-ubiquinone oxidoreductase complex I. The family includes the B14 subunit from bovine NADH-ubiquinone oxidoreductase B14 subunit Q02366 from SWISSPROT, and the B22 subunit from the human enzyme Q9Y6M9 from SWISSPROT. The family has been named LYR after a highly conserved tripeptide motif close to the N terminus of these proteins. Members of this family also found in yeast which do contain this complex. In these organisms they are believed to be be required for iron-sulphur custer biogenesis.
Probab=99.72 E-value=2.3e-17 Score=96.81 Aligned_cols=58 Identities=45% Similarity=0.715 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHH
Q 034275 12 PEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLA 69 (99)
Q Consensus 12 ~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~ 69 (99)
++||+|||.+||+++.||+++.+.+++..||++|++|++++||.+|+.+++.|+..|+
T Consensus 1 q~vl~LYR~lLR~~~~~~~~~~r~~~~~~iR~~Fr~n~~~~d~~~I~~~l~~g~~~l~ 58 (59)
T PF05347_consen 1 QRVLSLYRQLLRAARSFPDDSEREYIRAEIRQEFRKNRNETDPEKIEELLKKGEEELE 58 (59)
T ss_pred ChHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhc
Confidence 4799999999999999999889999999999999999999999999999999999886
No 4
>KOG4620 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.22 E-value=8.8e-11 Score=72.06 Aligned_cols=66 Identities=27% Similarity=0.325 Sum_probs=58.0
Q ss_pred cchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHHHHHH
Q 034275 8 APIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNL--TDPESISSAYAEGKNQLAIAKRQ 74 (99)
Q Consensus 8 ~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~--tD~~~I~~ll~~g~~~L~~lkrq 74 (99)
...+++||+|||.+||+|+.-|..+ ...|...|+++|++|.++ +|.-.|+.|+..|+.+++.+.+.
T Consensus 5 SgLQrqVlhlYR~~lraa~~Kp~~~-~~~~m~fvh~EFrk~~~lpr~Df~~IEhLlRvG~rq~~~~s~p 72 (80)
T KOG4620|consen 5 SGLQRQVLHLYRDLLRAARGKPGAE-ARRWMAFVHAEFRKHAGLPRSDFLRIEHLLRVGRRQLQLLSSP 72 (80)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchH-HHHHHHHHHHHHHHhcCCcHhHHHHHHHHHHHhHHHHHHhcCc
Confidence 4678999999999999999999655 456777999999999998 58999999999999999988654
No 5
>KOG3426 consensus NADH:ubiquinone oxidoreductase, NDUFA6/B14 subunit [Energy production and conversion]
Probab=99.08 E-value=5.5e-10 Score=73.82 Aligned_cols=82 Identities=28% Similarity=0.440 Sum_probs=68.6
Q ss_pred CCCCCC---cchHHHHHHHHHHHHHHHhccC-Chh----HHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHH--
Q 034275 2 VSPGQA---APIRPEILGLYRALLRAAREFR-DYN----VREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIA-- 71 (99)
Q Consensus 2 ~~~~ms---~~~r~~vl~LYR~lLR~ar~~~-~~~----~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~l-- 71 (99)
|-|.-| ...|.+|+.|||...|....+- +++ .-..++..||++|++|.++|||..|..|+-+|..+|+.+
T Consensus 11 v~Pi~S~n~~EARrrvl~~yra~~R~iP~~~~dy~L~dm~~~~~R~~ir~qf~kn~hvTD~rViDlLV~kg~~elkeiv~ 90 (124)
T KOG3426|consen 11 VVPINSANLTEARRRVLDLYRAWYRSIPTIVDDYNLQDMTVSQLRDKIREQFRKNAHVTDPRVIDLLVIKGMEELKEIVD 90 (124)
T ss_pred cCCCccCcHHHHHHHHHHHHHHHHHhcChHHHhcCCcccCHHHHHHHHHHHHHhcCCcCCchhhhHHHHhhHHHHHHHHH
Confidence 445555 4679999999999999998743 444 357789999999999999999999999999999999876
Q ss_pred --HHHHHHHhhcCC
Q 034275 72 --KRQAVVYSLYAP 83 (99)
Q Consensus 72 --krq~~i~~~y~~ 83 (99)
+.-.+|.+.|..
T Consensus 91 ~~kqr~Him~y~f~ 104 (124)
T KOG3426|consen 91 HWKQRHHIMRYYFT 104 (124)
T ss_pred HHhCchHHHHHhhc
Confidence 677788888755
No 6
>KOG3466 consensus NADH:ubiquinone oxidoreductase, NDUFB9/B22 subunit [Energy production and conversion]
Probab=98.46 E-value=7.3e-07 Score=61.07 Aligned_cols=64 Identities=22% Similarity=0.276 Sum_probs=57.5
Q ss_pred cchHHHHHHHHHHHHHHHhccCCh-hHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034275 8 APIRPEILGLYRALLRAAREFRDY-NVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72 (99)
Q Consensus 8 ~~~r~~vl~LYR~lLR~ar~~~~~-~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lk 72 (99)
.+++++|++|||.+||....|... |.-.|+.-.||..|.+|++ +|..++..||.+|+.+|...+
T Consensus 10 lshkqkV~rLYKRaLR~lenWy~~rn~yRy~ac~~RARFden~~-kD~~k~~~LLa~ge~E~w~~r 74 (157)
T KOG3466|consen 10 LSHKQKVRRLYKRALRDLENWYVHRNIYRYQACIIRARFDENDE-KDVDKAIRLLAEGERELWEWR 74 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHhhhhhh-hhHHHHHHHHHHHHHHHHhhc
Confidence 578999999999999999998743 5567888899999999999 999999999999999998774
No 7
>KOG4100 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.34 E-value=5.8e-06 Score=54.90 Aligned_cols=77 Identities=17% Similarity=0.231 Sum_probs=65.7
Q ss_pred CCCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 034275 5 GQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAP 83 (99)
Q Consensus 5 ~ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~ 83 (99)
+|..-+...|--|||.+||.-+-.|. ..|..--+++|++|+.|+++ +|..+.-++.+.+.....|..|.-+++.+..
T Consensus 3 ~~~~~~p~rvrlLYkriLrlHr~lp~-~~R~lGD~YVkdEFrrHk~v-np~~~~~FlteW~~Ya~~l~qql~~~g~~K~ 79 (125)
T KOG4100|consen 3 ASQLLHPPRVRLLYKRILRLHRGLPA-ELRALGDQYVKDEFRRHKTV-NPLEAQGFLTEWERYAVALSQQLSSAGKWKG 79 (125)
T ss_pred ccccCCcchHHHHHHHHHHHHccCCh-HHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHHHHHHhhhcCcccc
Confidence 34455667777799999999999995 66777778999999999999 9999999999999999999998887777655
No 8
>PF13233 Complex1_LYR_2: Complex1_LYR-like
Probab=98.24 E-value=9e-06 Score=52.31 Aligned_cols=66 Identities=24% Similarity=0.286 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHhccCChhHH-------HHHHHHH----HHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034275 14 ILGLYRALLRAAREFRDYNVR-------EYTKRRA----IDGFRENQNLTDPESISSAYAEGKNQLAIAKRQAVVYS 79 (99)
Q Consensus 14 vl~LYR~lLR~ar~~~~~~~r-------~~~~~~i----R~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~ 79 (99)
|++|||.+||+.+.++..... ..+..+| +++|+.+++.+++......+.+++.-+..|+.|..-..
T Consensus 1 V~~lYR~lLRel~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ef~~~~~~~~~~~~~~~~~~~~~y~~~L~~qr~y~e 77 (104)
T PF13233_consen 1 VLSLYRSLLRELRRYPRRSKIHQLKAPRSPGDQYVLEQARAEFRRHKSANDEEEAQEFLQEWENYATFLKNQREYKE 77 (104)
T ss_pred ChHHHHHHHHHHHhhcchhhhhhhhchhHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 689999999999998753321 5677788 99999999999999999999999999999998886543
No 9
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=96.03 E-value=0.057 Score=31.64 Aligned_cols=52 Identities=21% Similarity=0.324 Sum_probs=46.4
Q ss_pred hHHHHHHHHHHHHHHHhccCC-hhHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 034275 10 IRPEILGLYRALLRAAREFRD-YNVREYTKRRAIDGFRENQNLTDPESISSAY 61 (99)
Q Consensus 10 ~r~~vl~LYR~lLR~ar~~~~-~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll 61 (99)
.+.....||.++|+.-..+|. ..+|.+.-..+++.+.--+...|.++|+..+
T Consensus 3 pr~~L~~lY~~~L~~L~~~P~~a~YR~~tE~it~~Rl~iv~~~~d~~~iE~~i 55 (57)
T PF04716_consen 3 PREALISLYNKTLKALKKIPEDAAYRQYTEAITKHRLKIVEEEEDIEKIEKKI 55 (57)
T ss_pred hHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHccccHHHHHHHh
Confidence 577889999999999999994 4599999999999999999999999998765
No 10
>PF04018 DUF368: Domain of unknown function (DUF368); InterPro: IPR007163 This is a predicted transmembrane family of unknown function. Proteins usually have between 6 and 9 predicted transmembrane segments.
Probab=56.97 E-value=30 Score=25.91 Aligned_cols=46 Identities=22% Similarity=0.406 Sum_probs=36.1
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhh
Q 034275 2 VSPGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRE 47 (99)
Q Consensus 2 ~~~~ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~ 47 (99)
++|+-|..+-.=++..|.+++.+...+....++..++.+.++.+++
T Consensus 6 ivPGVSGGTiAlI~GIYe~lI~ai~~~~~~~~k~~~~~~~~~~~~~ 51 (257)
T PF04018_consen 6 IVPGVSGGTIALILGIYERLIEAISNIFPKDIKLLLKGRFKEAWKK 51 (257)
T ss_pred cCCCccHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence 6899999999999999999999999877455555555555555553
No 11
>COG1647 Esterase/lipase [General function prediction only]
Probab=56.59 E-value=9.2 Score=28.58 Aligned_cols=71 Identities=11% Similarity=0.115 Sum_probs=44.9
Q ss_pred CCCCCcchHHHHHHHHHHHHHHHhc---cCChhHHHHHHHHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 034275 3 SPGQAAPIRPEILGLYRALLRAARE---FRDYNVREYTKRRAIDGFRENQN--LTDPESISSAYAEGKNQLAIAKRQAVV 77 (99)
Q Consensus 3 ~~~ms~~~r~~vl~LYR~lLR~ar~---~~~~~~r~~~~~~iR~~Fr~nk~--~tD~~~I~~ll~~g~~~L~~lkrq~~i 77 (99)
.||.++......-..|..+++.++. ++..+. ..++++++..+. .+--.+...+++.+...++.+...+.|
T Consensus 112 v~m~a~~~~k~~~~iie~~l~y~~~~kk~e~k~~-----e~~~~e~~~~~~~~~~~~~~~~~~i~~~~~~~~~I~~pt~v 186 (243)
T COG1647 112 VPMCAPVNVKSWRIIIEGLLEYFRNAKKYEGKDQ-----EQIDKEMKSYKDTPMTTTAQLKKLIKDARRSLDKIYSPTLV 186 (243)
T ss_pred eeecCCcccccchhhhHHHHHHHHHhhhccCCCH-----HHHHHHHHHhhcchHHHHHHHHHHHHHHHhhhhhcccchhh
Confidence 4566655555555566666665544 443332 356667776663 345668888999999999988766654
Q ss_pred H
Q 034275 78 Y 78 (99)
Q Consensus 78 ~ 78 (99)
-
T Consensus 187 v 187 (243)
T COG1647 187 V 187 (243)
T ss_pred e
Confidence 3
No 12
>KOG3365 consensus NADH:ubiquinone oxidoreductase, NDUFA5/B13 subunit [Energy production and conversion]
Probab=42.87 E-value=1.1e+02 Score=21.12 Aligned_cols=64 Identities=13% Similarity=0.209 Sum_probs=46.7
Q ss_pred cchHHHHHHHHHHHHHHHhccCCh-hHHHHHHHHHHHHHhhcCCCCCHHHH---------HHHHHHHHHHHHHH
Q 034275 8 APIRPEILGLYRALLRAAREFRDY-NVREYTKRRAIDGFRENQNLTDPESI---------SSAYAEGKNQLAIA 71 (99)
Q Consensus 8 ~~~r~~vl~LYR~lLR~ar~~~~~-~~r~~~~~~iR~~Fr~nk~~tD~~~I---------~~ll~~g~~~L~~l 71 (99)
....++..-||-++|..-.+.|.. .+|.|.....++...-.+.+.|-+.+ ++.+.+++.+|+..
T Consensus 47 ~~~~~rl~~ly~kil~~~eqIpkn~ayRk~Tesit~~kLa~~k~E~d~K~ledql~gGqIEE~i~qa~~el~m~ 120 (145)
T KOG3365|consen 47 ENPHERLRDLYTKILDVLEQIPKNAAYRKYTESITNQKLAMLKAEPDVKKLEDQLQGGQIEEVIEQAEAELNMG 120 (145)
T ss_pred CCHHHHHHHHHHHhHHHHHHcchhhhhhHHHHHHHHHHHHHHHcchHHHHHHHHhcCCchHHHHHHHHHHHHHH
Confidence 345778889999999999999942 37888888888877777777776654 45555556666544
No 13
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=42.23 E-value=1.2e+02 Score=24.44 Aligned_cols=30 Identities=30% Similarity=0.295 Sum_probs=22.2
Q ss_pred CCCCCCCcchHHHHHHHHHHHHHHHhccCC
Q 034275 1 MVSPGQAAPIRPEILGLYRALLRAAREFRD 30 (99)
Q Consensus 1 ~~~~~ms~~~r~~vl~LYR~lLR~ar~~~~ 30 (99)
+||+|++...=.+-..+||.+|-..-.+++
T Consensus 198 r~I~m~~~~~l~~yv~l~r~ll~v~~e~~~ 227 (408)
T KOG2228|consen 198 RVIFMLPSLPLGDYVDLYRKLLSVPAEFSD 227 (408)
T ss_pred ceeeccCCCChHHHHHHHHHHhcCCccCcc
Confidence 578898877777777788888766656664
No 14
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=39.24 E-value=1.2e+02 Score=24.08 Aligned_cols=68 Identities=19% Similarity=0.200 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCC-----------------CCCHHHHHHHHHHHHHHHHHHHHHHH-
Q 034275 15 LGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQN-----------------LTDPESISSAYAEGKNQLAIAKRQAV- 76 (99)
Q Consensus 15 l~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~-----------------~tD~~~I~~ll~~g~~~L~~lkrq~~- 76 (99)
++|-.=++-.+++..+.+..-.|...|++.+...+. ..|-..+++++.+++..|+.+--.+-
T Consensus 75 lslvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~ 154 (380)
T KOG2908|consen 75 LSLVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSN 154 (380)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChh
Confidence 334444556666666665555677788888887775 34888888888888888877744443
Q ss_pred HHhhcC
Q 034275 77 VYSLYA 82 (99)
Q Consensus 77 i~~~y~ 82 (99)
|..+|+
T Consensus 155 Vh~~fY 160 (380)
T KOG2908|consen 155 VHSSFY 160 (380)
T ss_pred hhhhHH
Confidence 555443
No 15
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.92 E-value=1e+02 Score=23.68 Aligned_cols=56 Identities=23% Similarity=0.189 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHhccCC--hhHHHHHHHHHHHHHhhcCC-CCCHHHHHHHHHHHHH
Q 034275 11 RPEILGLYRALLRAAREFRD--YNVREYTKRRAIDGFRENQN-LTDPESISSAYAEGKN 66 (99)
Q Consensus 11 r~~vl~LYR~lLR~ar~~~~--~~~r~~~~~~iR~~Fr~nk~-~tD~~~I~~ll~~g~~ 66 (99)
|.+.-.+.+++......|.. .++++..+.+++..+..-.. .++.+.|+.+++.|..
T Consensus 122 rtq~~~~~kkf~~~M~~f~~~~~~~r~~~k~~i~Rql~i~~~~~~~de~ie~~ie~g~~ 180 (297)
T KOG0810|consen 122 RTQTSALSKKLKELMNEFNRTQSKYREEYKERIQRQLFIVGGEETTDEEIEEMIESGGS 180 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcCChHHHHHHHHCCCh
Confidence 45556666888888888773 25777777777777666655 8899999999887664
No 16
>PF10436 BCDHK_Adom3: Mitochondrial branched-chain alpha-ketoacid dehydrogenase kinase; InterPro: IPR018955 Catabolism and synthesis of leucine, isoleucine and valine are finely balanced, allowing the body to make the most of dietary input but removing excesses to prevent toxic build-up of their corresponding keto-acids. Regulating the activity of the branched-chain alpha-ketoacid dehydrogenase (BCDH) complex is the primary means by which these processes are coordinated. BCDH kinase regulates BCDH by phosphorylation, thereby inactivating it when synthesis is required. Pyruvate dehydrogenase kinase inhibits the pyruvate dehydrogenase complex by phosphorylation of the E1 alpha subunit, thus contributing to the regulation of glucose metabolism. It is also involved in telomere maintenance. This entry is associated with IPR003594 from INTERPRO which is found towards the C terminus. ; PDB: 1GKX_A 1GJV_A 1GKZ_A 1JM6_B 3CRL_B 3CRK_B 1Y8O_A 2PNR_A 1Y8P_A 1Y8N_A ....
Probab=36.23 E-value=1.4e+02 Score=20.49 Aligned_cols=60 Identities=13% Similarity=0.117 Sum_probs=43.4
Q ss_pred CcchHHHHHHHHHHHHHHHhccCCh---hHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Q 034275 7 AAPIRPEILGLYRALLRAAREFRDY---NVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQL 68 (99)
Q Consensus 7 s~~~r~~vl~LYR~lLR~ar~~~~~---~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L 68 (99)
+.++-.+|..+|-+.+..-+.||.. .....|...+++-.++|.++ ...+..-+.+.++.+
T Consensus 51 ~~p~i~~V~~~Y~~sF~~L~~~~~~~~~~~~~~F~~~l~~i~~~H~~v--v~~lA~G~~E~~~~~ 113 (164)
T PF10436_consen 51 SNPSIQQVYEWYLQSFEELRSFPPPKTLEDNEKFTELLERILDRHSDV--VPTLAQGVLELKKYL 113 (164)
T ss_dssp TSHHHHHHHHHHHHHHHHHHTTSTTTSCCHHHHHHHHHHHHHHHTTTH--HHHHHHHHHHHHHHC
T ss_pred cChhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhccc--HHHHHHHHHHHHHHh
Confidence 4677889999999999999998743 24567888899999998864 444444444444444
No 17
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=32.34 E-value=1.8e+02 Score=20.42 Aligned_cols=26 Identities=15% Similarity=0.149 Sum_probs=18.8
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHhc
Q 034275 2 VSPGQAAPIRPEILGLYRALLRAARE 27 (99)
Q Consensus 2 ~~~~ms~~~r~~vl~LYR~lLR~ar~ 27 (99)
.+|.+|...|.+....=+...-.++-
T Consensus 92 ~iP~lT~E~RkelvK~~k~~~E~aKv 117 (176)
T TIGR00496 92 NFPPLTEERRKELVKHAKKIAEQAKV 117 (176)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 57889998898877766666555543
No 18
>PRK10635 bacterioferritin; Provisional
Probab=31.66 E-value=1.3e+02 Score=20.63 Aligned_cols=32 Identities=22% Similarity=0.122 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHhccCChhHHHHHHHHHHH
Q 034275 12 PEILGLYRALLRAAREFRDYNVREYTKRRAID 43 (99)
Q Consensus 12 ~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~ 43 (99)
..++..|+.+++.|..-.|+..+..+...+.+
T Consensus 95 ~~ai~~y~e~i~~a~~~~D~~s~~ll~~iL~d 126 (158)
T PRK10635 95 LEGAKDLREAIAYADSVHDYVSRDMMIEILAD 126 (158)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 46777888888877766666555555544443
No 19
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=31.31 E-value=1.7e+02 Score=19.96 Aligned_cols=25 Identities=16% Similarity=0.224 Sum_probs=17.8
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHh
Q 034275 2 VSPGQAAPIRPEILGLYRALLRAAR 26 (99)
Q Consensus 2 ~~~~ms~~~r~~vl~LYR~lLR~ar 26 (99)
.||.||...|.+....=+.+.-.++
T Consensus 83 ~iP~~T~E~R~~l~k~~k~~~E~~k 107 (165)
T PF01765_consen 83 PIPPPTEERRKELVKQAKKIAEEAK 107 (165)
T ss_dssp E--SSSHHHHHHHHHHHHHHHHHHH
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHHH
Confidence 5899999999998877666666655
No 20
>PF06694 Plant_NMP1: Plant nuclear matrix protein 1 (NMP1); InterPro: IPR010604 This family consists of several plant specific nuclear matrix protein 1 (NMP1) sequences. Nuclear Matrix Protein 1 is a ubiquitously expressed 36 kDa protein, which has no homologues in animals and fungi, but is highly conserved among flowering and non-flowering plants. NMP1 is located both in the cytoplasm and nucleus and that the nuclear fraction is associated with the nuclear matrix. NMP1 is a candidate for a plant-specific structural protein with a function both in the nucleus and cytoplasm [].
Probab=29.57 E-value=2.1e+02 Score=22.39 Aligned_cols=60 Identities=20% Similarity=0.321 Sum_probs=43.2
Q ss_pred cchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCC------CCHHHHHHHHHHHHHHHHHHHHHHHH
Q 034275 8 APIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNL------TDPESISSAYAEGKNQLAIAKRQAVV 77 (99)
Q Consensus 8 ~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~------tD~~~I~~ll~~g~~~L~~lkrq~~i 77 (99)
++...+|+.+|+.+++...... .+|+.+..--.. +.|.-+-.++.+|++-|..+.|-.-|
T Consensus 251 GPAa~Rlle~y~~l~klL~nL~----------~lr~Sh~ai~~gs~~t~s~e~~s~~~ivs~~e~al~~lnr~l~i 316 (325)
T PF06694_consen 251 GPAANRLLELYKMLLKLLGNLA----------TLRDSHAAIAAGSSPTTSDEPSSVTQIVSECETALTQLNRSLAI 316 (325)
T ss_pred cHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHhcCCCccccCCCccHHHHHHHHHHHHHHHHhhhHH
Confidence 4668899999999999876544 445555444332 34567788999999999999776544
No 21
>KOG2652 consensus RNA polymerase II transcription initiation factor TFIIA, large chain [Transcription]
Probab=29.57 E-value=2e+02 Score=22.76 Aligned_cols=46 Identities=17% Similarity=0.220 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034275 13 EILGLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAK 72 (99)
Q Consensus 13 ~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lk 72 (99)
.|..+|+.++ +-.+..+|+.|.++- -|+..+.+|-...+..|-.-+
T Consensus 6 ~v~kvY~~VI------------eDVI~~vRe~F~~~G--iDeqvL~eLk~lWe~Kl~qs~ 51 (348)
T KOG2652|consen 6 TVSKVYESVI------------EDVINNVREDFLENG--IDEQVLSELKNLWETKLIQSG 51 (348)
T ss_pred chHHHHHHHH------------HHHHHHHHHHHHhcC--ccHHHHHHHHHHHHHHHHhhc
Confidence 4566777664 346779999999997 799999999999998876553
No 22
>TIGR00188 rnpA ribonuclease P protein component, eubacterial. The yeast mitochondrial RNase P protein component gene RPM2 has no obvious sequence similarity to rnpA, but resembles eukaryotic nuclear RNase P instead.
Probab=27.40 E-value=62 Score=20.49 Aligned_cols=19 Identities=37% Similarity=0.356 Sum_probs=16.4
Q ss_pred hHHHHHHHHHHHHHhhcCC
Q 034275 32 NVREYTKRRAIDGFRENQN 50 (99)
Q Consensus 32 ~~r~~~~~~iR~~Fr~nk~ 50 (99)
..|..+++.+|+.|+.+++
T Consensus 55 V~RNriKR~lRe~~R~~~~ 73 (105)
T TIGR00188 55 VERNRIKRLIREVFRERQE 73 (105)
T ss_pred hHHHHHHHHHHHHHHHhhc
Confidence 4688899999999999875
No 23
>PF15076 DUF4543: Domain of unknown function (DUF4543)
Probab=27.19 E-value=1.5e+02 Score=17.97 Aligned_cols=21 Identities=43% Similarity=0.713 Sum_probs=13.4
Q ss_pred HHHHHHHhc-------cCChhHHHHHHH
Q 034275 19 RALLRAARE-------FRDYNVREYTKR 39 (99)
Q Consensus 19 R~lLR~ar~-------~~~~~~r~~~~~ 39 (99)
+++||+-++ ||+.-.++|...
T Consensus 15 KqlLRsrR~dr~~K~GfpdepmrE~ml~ 42 (75)
T PF15076_consen 15 KQLLRSRRQDRPRKPGFPDEPMREYMLH 42 (75)
T ss_pred HHHHHHHHhcCCCCCCCCcchHHHHHHH
Confidence 556666654 776667777653
No 24
>PRK01903 rnpA ribonuclease P; Reviewed
Probab=26.31 E-value=54 Score=22.01 Aligned_cols=23 Identities=17% Similarity=0.182 Sum_probs=18.3
Q ss_pred cCChhHHHHHHHHHHHHHhhcCC
Q 034275 28 FRDYNVREYTKRRAIDGFRENQN 50 (99)
Q Consensus 28 ~~~~~~r~~~~~~iR~~Fr~nk~ 50 (99)
+.....|..+++.+|+.|+.|++
T Consensus 61 ~g~AV~RNRiKR~lREa~R~~~~ 83 (133)
T PRK01903 61 VPRAVKRNRIKRLMREAYRLEKH 83 (133)
T ss_pred CCchhhhhHHHHHHHHHHHHhHh
Confidence 34334688899999999999887
No 25
>PRK05629 hypothetical protein; Validated
Probab=26.30 E-value=2.3e+02 Score=21.09 Aligned_cols=59 Identities=8% Similarity=0.006 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHhccCC-hhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q 034275 15 LGLYRALLRAAREFRD-YNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKR 73 (99)
Q Consensus 15 l~LYR~lLR~ar~~~~-~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkr 73 (99)
-++|+.+-+.+.-+.. .-....+.++|++.|+++.-.-+++.++.|+.....++..+..
T Consensus 108 kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~ 167 (318)
T PRK05629 108 KSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELAS 167 (318)
T ss_pred hHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHH
Confidence 4677776666654331 2245678889999999998888999999999988887777743
No 26
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=25.94 E-value=2.6e+02 Score=20.18 Aligned_cols=46 Identities=13% Similarity=0.139 Sum_probs=29.1
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHhhc
Q 034275 2 VSPGQAAPIRPEILGLYRALLRAAREFRDYNVREYTKRRAIDGFREN 48 (99)
Q Consensus 2 ~~~~ms~~~r~~vl~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~n 48 (99)
.+|++|...|+++...-+..--.++ ..-.|.|......++..+...
T Consensus 103 ~~P~lTeErRkelvK~~k~~~Eeak-vaiRniRrda~d~iKK~~K~~ 148 (187)
T COG0233 103 PLPPLTEERRKELVKVAKKYAEEAK-VAVRNIRRDANDKIKKLEKDK 148 (187)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhccC
Confidence 5799999999887777666665555 222355555555555554443
No 27
>PRK00927 tryptophanyl-tRNA synthetase; Reviewed
Probab=25.42 E-value=2.3e+02 Score=21.73 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 034275 37 TKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQA 75 (99)
Q Consensus 37 ~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~ 75 (99)
+..-+|+.|+.-.+ |+..++..|++|.+....+.+.+
T Consensus 284 ~l~pire~~~~~~~--~~~~~~~il~~G~~~a~~~a~~~ 320 (333)
T PRK00927 284 FLAPIRERYEELLA--DPAYLDEILAEGAEKARAVASKT 320 (333)
T ss_pred HHHHHHHHHHHHHc--CHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466677766654 89999999999998888776554
No 28
>PF00825 Ribonuclease_P: Ribonuclease P; InterPro: IPR000100 Ribonuclease P (3.1.26.5 from EC) (RNase P) [, , ] is a site specific endonuclease that generates mature tRNAs by catalysing the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. In bacteria RNase P is known to be composed of two components: a large RNA (about 400 base pairs) encoded by rnpB, and a small protein (119 to 133 amino acids) encoded by rnpA. The RNA moiety of RNase P carries the catalytic activity; the protein component plays an auxiliary, but essential, role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. The sequence of rnpA is not highly conserved, however there is, in the central part of the protein, a conserved basic region.; GO: 0000049 tRNA binding, 0004526 ribonuclease P activity, 0008033 tRNA processing; PDB: 1D6T_A 1A6F_A 2LJP_A 1NZ0_C 3Q1Q_A 3Q1R_A.
Probab=25.07 E-value=1.1e+02 Score=19.28 Aligned_cols=21 Identities=33% Similarity=0.316 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHHHhhcCCC
Q 034275 31 YNVREYTKRRAIDGFRENQNL 51 (99)
Q Consensus 31 ~~~r~~~~~~iR~~Fr~nk~~ 51 (99)
-..|..+++.+|+.|+.+...
T Consensus 56 AV~RNriKR~lRe~~R~~~~~ 76 (111)
T PF00825_consen 56 AVKRNRIKRRLREAFRLNKPE 76 (111)
T ss_dssp HHHHHHHHHHHHHHHHHCTTT
T ss_pred hhHHHHHHHHHHHHHHHHHhh
Confidence 347889999999999999864
No 29
>KOG2713 consensus Mitochondrial tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.97 E-value=1.7e+02 Score=22.92 Aligned_cols=62 Identities=16% Similarity=0.310 Sum_probs=38.4
Q ss_pred HHHHHHHHHHH--------HHHHhccCChhHHHHHHH-------HHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 034275 11 RPEILGLYRAL--------LRAAREFRDYNVREYTKR-------RAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQ 74 (99)
Q Consensus 11 r~~vl~LYR~l--------LR~ar~~~~~~~r~~~~~-------~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq 74 (99)
-+..+++|-.+ .+++..+....|..+... =||.+|++..+ +++.+...+++|-+...++..+
T Consensus 257 vsNLlni~aaVt~~s~eeV~~~~a~~~~~~fK~~vaeAvie~L~PIr~~fee~~~--~~~~l~kvl~~GaekAre~A~~ 333 (347)
T KOG2713|consen 257 VSNLLNIYAAVTGKSIEEVVEESANMSTADFKDNVAEAVIEHLAPIRTEFEELIN--EPEYLDKVLEEGAEKARELAAK 333 (347)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHhccCCHHHHHHHHHHHHHHHhccHHHHHHHHhc--CHHHHHHHHHHhHHHHHHHHHH
Confidence 44556666543 344444443334433322 47888888766 7888889998888777666543
No 30
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=24.70 E-value=90 Score=24.05 Aligned_cols=24 Identities=25% Similarity=0.308 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHhhcCCCCCHHH
Q 034275 33 VREYTKRRAIDGFRENQNLTDPES 56 (99)
Q Consensus 33 ~r~~~~~~iR~~Fr~nk~~tD~~~ 56 (99)
|-..-..+++.||.+|+.+|...+
T Consensus 253 FtaeQL~RLK~EF~enRYlTEqRR 276 (342)
T KOG0493|consen 253 FTAEQLQRLKAEFQENRYLTEQRR 276 (342)
T ss_pred ccHHHHHHHHHHHhhhhhHHHHHH
Confidence 556678899999999999985543
No 31
>PF13743 Thioredoxin_5: Thioredoxin; PDB: 3KZQ_C.
Probab=23.75 E-value=2.5e+02 Score=19.26 Aligned_cols=47 Identities=17% Similarity=0.158 Sum_probs=26.2
Q ss_pred HHHhccCChhHHHHHHHHHHHHH-hhcCCCCCHHHHHHHHHHHHHHHHH
Q 034275 23 RAAREFRDYNVREYTKRRAIDGF-RENQNLTDPESISSAYAEGKNQLAI 70 (99)
Q Consensus 23 R~ar~~~~~~~r~~~~~~iR~~F-r~nk~~tD~~~I~~ll~~g~~~L~~ 70 (99)
++|+ +.+......|...+++.+ .++++.+|.+.+.++.++..=+++.
T Consensus 72 kAA~-~qg~k~~~~fL~~lQ~a~~~~~~~~s~~~~l~~iA~~~gLD~~~ 119 (176)
T PF13743_consen 72 KAAQ-LQGKKKARRFLRALQEALFLEGKNYSDEELLLEIAEELGLDVEM 119 (176)
T ss_dssp HHHH-TTT-H--HHHHHHHHHHHHTS---TTSHHHHHHHHHHTT--HHH
T ss_pred HHHH-HhChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhCCCHHH
Confidence 4443 444444456777888777 8899999988777777665433333
No 32
>PRK14865 rnpA ribonuclease P; Provisional
Probab=23.01 E-value=86 Score=20.25 Aligned_cols=18 Identities=33% Similarity=0.385 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHhhcCC
Q 034275 33 VREYTKRRAIDGFRENQN 50 (99)
Q Consensus 33 ~r~~~~~~iR~~Fr~nk~ 50 (99)
.|..+++.+|+.|+.+++
T Consensus 60 ~RNRiKR~lRE~~R~~~~ 77 (116)
T PRK14865 60 VRNRIKRLVREFYRLNKS 77 (116)
T ss_pred hHHHHHHHHHHHHHHhhc
Confidence 578899999999998775
No 33
>PRK00396 rnpA ribonuclease P; Reviewed
Probab=22.83 E-value=89 Score=20.89 Aligned_cols=18 Identities=39% Similarity=0.405 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHhhcCC
Q 034275 33 VREYTKRRAIDGFRENQN 50 (99)
Q Consensus 33 ~r~~~~~~iR~~Fr~nk~ 50 (99)
.|..+++.+|+.|+.|++
T Consensus 62 ~RNRiKR~lRE~fR~~~~ 79 (130)
T PRK00396 62 DRNRLKRLIRESFRLNQH 79 (130)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 678899999999999886
No 34
>KOG2728 consensus Uncharacterized conserved protein with similarity to phosphopantothenoylcysteine synthetase/decarboxylase [General function prediction only]
Probab=22.71 E-value=42 Score=25.66 Aligned_cols=46 Identities=15% Similarity=0.122 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhhcCC------CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 034275 35 EYTKRRAIDGFRENQN------LTDPESISSAYAEGKNQLAIAKRQAVVYSLYAP 83 (99)
Q Consensus 35 ~~~~~~iR~~Fr~nk~------~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~ 83 (99)
..+.+.+.+.+-.+.- +|||. -|+.+|++-|+..+.|.+|.++-.+
T Consensus 205 PK~L~~Lv~~WaP~AfiiSFKLETDes---iLi~KAr~AL~kY~HqlVIAN~LsT 256 (302)
T KOG2728|consen 205 PKMLSPLVSDWAPKAFIISFKLETDES---ILINKARKALEKYKHQLVIANLLST 256 (302)
T ss_pred hHHHHHHHHhhCcceEEEEEEecCChH---HHHHHHHHHHHHhCceeeeeehhhh
Confidence 3556667777766654 58995 5899999999999999999999866
No 35
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=22.54 E-value=3.4e+02 Score=20.35 Aligned_cols=53 Identities=17% Similarity=0.112 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhccCChhHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHH
Q 034275 16 GLYRALLRAAREFRDYNVREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIA 71 (99)
Q Consensus 16 ~LYR~lLR~ar~~~~~~~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~l 71 (99)
.|.+.+.+.+..||..-+++.+. .+|+.|....+ .-...+.-+.+.+.+|+.+
T Consensus 161 vLL~~ae~L~~vYP~~ga~eki~-~Lr~~y~~l~~--~i~~lE~~VaeQ~~qL~~~ 213 (259)
T PF08657_consen 161 VLLRGAEKLCNVYPLPGAREKIA-ALRQRYNQLSN--SIAYLEAEVAEQEAQLERM 213 (259)
T ss_pred HHHHHHHHHHHhCCChHHHHHHH-HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 78899999999999765554444 55666655532 2334444444555555444
No 36
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=22.44 E-value=1.2e+02 Score=21.80 Aligned_cols=48 Identities=21% Similarity=0.130 Sum_probs=32.9
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHhc----cCChhHHHHHHHHHHHHHhhcCCCC
Q 034275 2 VSPGQAAPIRPEILGLYRALLRAARE----FRDYNVREYTKRRAIDGFRENQNLT 52 (99)
Q Consensus 2 ~~~~ms~~~r~~vl~LYR~lLR~ar~----~~~~~~r~~~~~~iR~~Fr~nk~~t 52 (99)
||...|..+-...-.+-++++|.+++ || ||. |++.+..=-|+-..-+|
T Consensus 79 VIlsqtLQ~~~~P~~vL~EmlRVgr~~IVsFP--NFg-~W~~R~~l~~~GrmPvt 130 (193)
T PF07021_consen 79 VILSQTLQAVRRPDEVLEEMLRVGRRAIVSFP--NFG-HWRNRLQLLLRGRMPVT 130 (193)
T ss_pred EehHhHHHhHhHHHHHHHHHHHhcCeEEEEec--ChH-HHHHHHHHHhcCCCCCC
Confidence 55666666666677888999999986 66 553 66666666666555444
No 37
>COG0362 Gnd 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=22.41 E-value=2.1e+02 Score=23.47 Aligned_cols=43 Identities=16% Similarity=0.088 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 034275 33 VREYTKRRAIDGFRENQNLTDPESISSAYAEGKNQLAIAKRQA 75 (99)
Q Consensus 33 ~r~~~~~~iR~~Fr~nk~~tD~~~I~~ll~~g~~~L~~lkrq~ 75 (99)
.|..|.+.|++.|++|.++.+--.-..+....++....|++..
T Consensus 367 IRs~FL~~I~~af~~~p~l~nLl~~pyF~~~~~~~~~~~R~vV 409 (473)
T COG0362 367 IRSKFLDKITDAFDENPELANLLLAPYFKSILEEYQQSLRRVV 409 (473)
T ss_pred ehHHHHHHHHHHHhcCcchhhhhcCHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999988766555555555555555555543
No 38
>PRK13452 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=21.65 E-value=2.7e+02 Score=18.85 Aligned_cols=46 Identities=20% Similarity=0.229 Sum_probs=28.0
Q ss_pred HHHHHHHHHHhhc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 034275 36 YTKRRAIDGFREN-QNLTDPESISSAYAEGKNQLAIAKRQAVVYSLYAPK 84 (99)
Q Consensus 36 ~~~~~iR~~Fr~n-k~~tD~~~I~~ll~~g~~~L~~lkrq~~i~~~y~~~ 84 (99)
..+.++.+...+. .+..|....+..++.+...|..++ ..+++|+++
T Consensus 97 ~a~~~Ae~~L~~~~~~~~~~~~a~~~L~rA~~Rl~~~~---~~~~~~~~~ 143 (145)
T PRK13452 97 KARARAKEVLKNPDASKLDIEAANKRLKEADARLKALN---SSNGLYYSK 143 (145)
T ss_pred HHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHh---hcCCceecC
Confidence 3344555655553 233345566677888887777754 667788763
No 39
>PRK00499 rnpA ribonuclease P; Reviewed
Probab=21.38 E-value=86 Score=20.12 Aligned_cols=19 Identities=37% Similarity=0.457 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHhhcCC
Q 034275 32 NVREYTKRRAIDGFRENQN 50 (99)
Q Consensus 32 ~~r~~~~~~iR~~Fr~nk~ 50 (99)
..|..+++.+|+.|+.+.+
T Consensus 52 V~RNriKR~lRE~~R~~~~ 70 (114)
T PRK00499 52 VVRNRIKRLIRESFRELKD 70 (114)
T ss_pred hhHhHHHHHHHHHHHHhhh
Confidence 3688899999999999875
No 40
>PF08990 Docking: Erythronolide synthase docking; InterPro: IPR015083 The N-terminal docking domain found in modular polyketide synthase assumes an alpha-helical structure, wherein two alpha-helices are connected by a short loop. Two such N-terminal domains dimerise to form amphipathic parallel alpha-helical coiled coils: dimerisation is essential for protein function []. ; GO: 0016740 transferase activity, 0048037 cofactor binding; PDB: 2HG4_E.
Probab=20.28 E-value=1.3e+02 Score=14.78 Aligned_cols=23 Identities=13% Similarity=0.241 Sum_probs=16.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Q 034275 52 TDPESISSAYAEGKNQLAIAKRQ 74 (99)
Q Consensus 52 tD~~~I~~ll~~g~~~L~~lkrq 74 (99)
++.+++.+.|+.+-.+|...+++
T Consensus 2 ~~e~kLr~YLkr~t~eL~~~r~R 24 (27)
T PF08990_consen 2 ANEDKLRDYLKRVTAELRRARRR 24 (27)
T ss_dssp --HCHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHH
Confidence 35678888888888888877654
Done!