Query 034609
Match_columns 89
No_of_seqs 100 out of 385
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 04:37:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034609.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034609hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4620 Uncharacterized conser 99.9 5.4E-23 1.2E-27 127.8 8.5 80 6-86 1-80 (80)
2 KOG3801 Uncharacterized conser 99.8 4.1E-19 8.8E-24 114.3 6.9 70 10-82 3-73 (94)
3 PF13232 Complex1_LYR_1: Compl 99.7 4.2E-17 9.1E-22 97.0 7.1 60 14-76 1-61 (61)
4 PF05347 Complex1_LYR: Complex 99.7 9.6E-17 2.1E-21 94.2 6.4 58 14-74 1-59 (59)
5 KOG3426 NADH:ubiquinone oxidor 98.3 2.8E-06 6E-11 57.1 6.1 64 10-76 20-89 (124)
6 KOG4100 Uncharacterized conser 97.8 0.00014 3.1E-09 48.9 7.5 60 15-78 11-70 (125)
7 PF13233 Complex1_LYR_2: Compl 97.6 0.0002 4.3E-09 45.9 5.9 61 16-79 1-73 (104)
8 KOG3466 NADH:ubiquinone oxidor 97.2 0.0022 4.7E-08 44.7 6.6 64 11-78 11-76 (157)
9 PF04716 ETC_C1_NDUFA5: ETC co 94.9 0.25 5.4E-06 29.2 6.7 49 14-65 5-55 (57)
10 PF04380 BMFP: Membrane fusoge 83.5 8.2 0.00018 23.8 6.6 56 21-77 16-71 (79)
11 PF02093 Gag_p30: Gag P30 core 71.1 10 0.00022 28.0 4.6 45 14-59 102-163 (211)
12 PRK04820 rnpA ribonuclease P; 68.4 21 0.00045 24.6 5.5 51 32-82 62-125 (145)
13 PF08006 DUF1700: Protein of u 63.2 30 0.00064 23.9 5.6 34 13-49 3-36 (181)
14 PRK05629 hypothetical protein; 57.2 25 0.00053 26.3 4.6 57 17-76 108-166 (318)
15 COG4877 Uncharacterized protei 52.8 33 0.00071 20.6 3.7 29 36-72 19-47 (63)
16 PF00825 Ribonuclease_P: Ribon 48.5 69 0.0015 20.3 5.5 23 32-54 56-78 (111)
17 PRK03459 rnpA ribonuclease P; 47.2 67 0.0014 21.2 5.0 43 32-74 61-117 (122)
18 PF09039 HTH_Tnp_Mu_2: Mu DNA 46.6 62 0.0014 21.1 4.7 52 13-75 48-101 (108)
19 PRK00588 rnpA ribonuclease P; 42.3 32 0.00069 22.6 2.8 23 32-54 56-78 (118)
20 PF05674 DUF816: Baculovirus p 39.5 1.1E+02 0.0023 22.0 5.2 47 20-70 16-62 (171)
21 TIGR00188 rnpA ribonuclease P 39.1 39 0.00086 21.5 2.8 22 32-53 54-75 (105)
22 PRK07914 hypothetical protein; 38.8 74 0.0016 23.8 4.7 56 18-76 109-168 (320)
23 PF06144 DNA_pol3_delta: DNA p 36.9 44 0.00095 22.0 2.9 55 19-76 108-164 (172)
24 PRK00499 rnpA ribonuclease P; 36.8 1.1E+02 0.0025 19.6 4.8 45 32-76 51-109 (114)
25 PRK00038 rnpA ribonuclease P; 36.7 46 0.001 22.2 2.9 26 32-57 64-89 (123)
26 PLN02956 PSII-Q subunit 35.5 1.7E+02 0.0037 21.2 7.1 57 18-75 121-181 (185)
27 PRK00396 rnpA ribonuclease P; 34.9 47 0.001 22.3 2.8 41 32-72 60-113 (130)
28 PRK00730 rnpA ribonuclease P; 34.2 46 0.00099 22.9 2.6 22 32-53 59-80 (138)
29 PF08134 cIII: cIII protein fa 33.9 59 0.0013 18.1 2.6 18 59-76 24-41 (44)
30 PRK14865 rnpA ribonuclease P; 33.5 58 0.0013 21.1 3.0 22 32-53 58-79 (116)
31 PRK04390 rnpA ribonuclease P; 32.4 54 0.0012 21.5 2.7 42 32-73 58-112 (120)
32 PRK01732 rnpA ribonuclease P; 32.4 53 0.0012 21.4 2.7 24 32-55 59-82 (114)
33 PRK05907 hypothetical protein; 30.1 90 0.002 23.8 3.9 44 29-75 130-174 (311)
34 PRK01903 rnpA ribonuclease P; 28.7 49 0.0011 22.3 2.1 23 32-54 64-86 (133)
35 PRK10635 bacterioferritin; Pro 28.3 1.7E+02 0.0038 20.0 4.8 34 13-46 94-128 (158)
36 PRK03031 rnpA ribonuclease P; 26.7 1.8E+02 0.0038 19.0 4.4 42 32-73 61-116 (122)
37 PRK08507 prephenate dehydrogen 26.6 1.3E+02 0.0028 21.8 4.1 22 52-73 252-273 (275)
38 PRK05574 holA DNA polymerase I 26.3 1.8E+02 0.0038 21.3 4.8 53 20-75 131-185 (340)
39 KOG2873 Ubiquinol cytochrome c 25.5 3.2E+02 0.0069 21.1 6.3 52 29-84 214-265 (284)
40 COG0594 RnpA RNase P protein c 23.3 92 0.002 20.4 2.6 19 32-50 55-73 (117)
41 KOG4754 Predicted phosphoglyce 23.2 90 0.002 23.5 2.7 32 58-89 158-189 (248)
42 PF08621 RPAP1_N: RPAP1-like, 22.5 72 0.0016 18.1 1.7 15 57-71 32-46 (49)
43 TIGR01128 holA DNA polymerase 21.7 1.7E+02 0.0038 20.9 4.0 42 30-74 108-149 (302)
44 PRK06585 holA DNA polymerase I 21.6 1.3E+02 0.0028 22.5 3.4 40 33-75 142-181 (343)
45 KOG0810 SNARE protein Syntaxin 21.6 3.5E+02 0.0076 20.8 5.7 60 8-72 119-182 (297)
46 PF05757 PsbQ: Oxygen evolving 21.4 3.3E+02 0.0072 19.8 6.8 57 18-75 137-197 (202)
47 PRK08487 DNA polymerase III su 21.2 1.7E+02 0.0037 22.0 4.0 39 35-76 137-175 (328)
48 PLN02540 methylenetetrahydrofo 20.9 3.7E+02 0.008 22.6 6.1 44 41-88 227-270 (565)
49 KOG1107 Membrane coat complex 20.7 3.2E+02 0.0069 24.0 5.7 62 14-78 657-723 (760)
50 PF14714 KH_dom-like: KH-domai 20.1 1.2E+02 0.0025 18.6 2.4 18 29-46 51-68 (80)
No 1
>KOG4620 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.89 E-value=5.4e-23 Score=127.76 Aligned_cols=80 Identities=49% Similarity=0.731 Sum_probs=74.2
Q ss_pred CCCchhhHHHHHHHHHHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCCccccccc
Q 034609 6 GPRLSGLQKQVLSLYRGFLRAARCKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSPNTESLSQ 85 (89)
Q Consensus 6 ~~r~s~lq~~VLsLYR~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~~v~~~~~ 85 (89)
+.|+||||+|||+|||++||+|+.+|..+...|..+|++||+.+. .+|++|+-.||+||+.|+++|+.+.+|.+++||-
T Consensus 1 ~~rlSgLQrqVlhlYR~~lraa~~Kp~~~~~~~m~fvh~EFrk~~-~lpr~Df~~IEhLlRvG~rq~~~~s~pe~t~ih~ 79 (80)
T KOG4620|consen 1 MSRLSGLQRQVLHLYRDLLRAARGKPGAEARRWMAFVHAEFRKHA-GLPRSDFLRIEHLLRVGRRQLQLLSSPEATAIHA 79 (80)
T ss_pred CcchhHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhc-CCcHhHHHHHHHHHHHhHHHHHHhcCcchhhccc
Confidence 578999999999999999999999998777789999999996666 6799999999999999999999999999999985
Q ss_pred c
Q 034609 86 T 86 (89)
Q Consensus 86 ~ 86 (89)
|
T Consensus 80 ~ 80 (80)
T KOG4620|consen 80 F 80 (80)
T ss_pred C
Confidence 4
No 2
>KOG3801 consensus Uncharacterized conserved protein BCN92 [RNA processing and modification]
Probab=99.78 E-value=4.1e-19 Score=114.27 Aligned_cols=70 Identities=30% Similarity=0.336 Sum_probs=66.0
Q ss_pred hhhHHHHHHHHHHHHHHHhcCC-hHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCCcccc
Q 034609 10 SGLQKQVLSLYRGFLRAARCKS-AADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSPNTES 82 (89)
Q Consensus 10 s~lq~~VLsLYR~~LR~ar~~p-~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~~v~~ 82 (89)
+..+++||+|||.+||++..|| +|+|+|+.+++|+.||+|+.. +||..|+.++.+|+++|+.|++|+|.+
T Consensus 3 ~~sr~qvlsLyr~~lr~s~qfp~YNyReY~~RrtRD~Fr~Nkn~---~Dp~e~~~l~~eakk~LevikRQ~ii~ 73 (94)
T KOG3801|consen 3 MVSRRQVLSLYRNLLRESKQFPQYNYREYFQRRTRDTFRANKNV---CDPAEIKKLYKEAKKQLEVIKRQSIIG 73 (94)
T ss_pred cccHHHHHHHHHHHHHHHhhCCcccHHHHHHHHHHHHHHHhccc---CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999999999 799999999999999999988 999999999999999999999998864
No 3
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=99.71 E-value=4.2e-17 Score=96.96 Aligned_cols=60 Identities=40% Similarity=0.495 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHHhcCC-hHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 14 KQVLSLYRGFLRAARCKS-AADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 14 ~~VLsLYR~~LR~ar~~p-~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
++||+|||++||+++.+| ++.|.|+..+||++|+.|+.. +||+.|+.++..|+.+|++|+
T Consensus 1 ~~vL~LYR~lLR~~~~~~~~~~r~~~~~~ir~~Fr~~~~~---td~~~i~~~l~~~~~~L~~l~ 61 (61)
T PF13232_consen 1 QQVLSLYRQLLREASKFPDYNFRSYFRRRIRDRFRRNKNV---TDPEKIAKLLKEGRKELELLR 61 (61)
T ss_pred ChHHHHHHHHHHHhhhcCCcchHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHHHHHHcC
Confidence 379999999999999999 699999999999999999987 999999999999999999874
No 4
>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=99.69 E-value=9.6e-17 Score=94.15 Aligned_cols=58 Identities=43% Similarity=0.657 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHhcCCh-HhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHH
Q 034609 14 KQVLSLYRGFLRAARCKSA-ADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQ 74 (89)
Q Consensus 14 ~~VLsLYR~~LR~ar~~p~-~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~ 74 (89)
++||+|||++||+++.+|. +.+.++..+||++|++|+.+ +||..|+.++..|+..|+|
T Consensus 1 q~vl~LYR~lLR~~~~~~~~~~r~~~~~~iR~~Fr~n~~~---~d~~~I~~~l~~g~~~l~~ 59 (59)
T PF05347_consen 1 QRVLSLYRQLLRAARSFPDDSEREYIRAEIRQEFRKNRNE---TDPEKIEELLKKGEEELEM 59 (59)
T ss_pred ChHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHHHHhcC
Confidence 4799999999999999996 56999999999999999987 9999999999999999975
No 5
>KOG3426 consensus NADH:ubiquinone oxidoreductase, NDUFA6/B14 subunit [Energy production and conversion]
Probab=98.28 E-value=2.8e-06 Score=57.08 Aligned_cols=64 Identities=22% Similarity=0.427 Sum_probs=52.2
Q ss_pred hhhHHHHHHHHHHHHHHHhcCC--hH----hHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 10 SGLQKQVLSLYRGFLRAARCKS--AA----DRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 10 s~lq~~VLsLYR~~LR~ar~~p--~~----~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
...++.||.|||.+.|....+- ++ .-..++..||++|+.|... |||-.|+.|+-+|..+|+.+-
T Consensus 20 ~EARrrvl~~yra~~R~iP~~~~dy~L~dm~~~~~R~~ir~qf~kn~hv---TD~rViDlLV~kg~~elkeiv 89 (124)
T KOG3426|consen 20 TEARRRVLDLYRAWYRSIPTIVDDYNLQDMTVSQLRDKIREQFRKNAHV---TDPRVIDLLVIKGMEELKEIV 89 (124)
T ss_pred HHHHHHHHHHHHHHHHhcChHHHhcCCcccCHHHHHHHHHHHHHhcCCc---CCchhhhHHHHhhHHHHHHHH
Confidence 4568899999999999987654 12 2345678999999777766 999999999999999998763
No 6
>KOG4100 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.82 E-value=0.00014 Score=48.94 Aligned_cols=60 Identities=28% Similarity=0.270 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCC
Q 034609 15 QVLSLYRGFLRAARCKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSP 78 (89)
Q Consensus 15 ~VLsLYR~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~ 78 (89)
.|--|||.+||..+.+|++.|..--.||++|||.++.. +|..+.-.|..=..=..+|..|
T Consensus 11 rvrlLYkriLrlHr~lp~~~R~lGD~YVkdEFrrHk~v----np~~~~~FlteW~~Ya~~l~qq 70 (125)
T KOG4100|consen 11 RVRLLYKRILRLHRGLPAELRALGDQYVKDEFRRHKTV----NPLEAQGFLTEWERYAVALSQQ 70 (125)
T ss_pred hHHHHHHHHHHHHccCChHHHHHHHHHHHHHHHHhccC----ChHHHHHHHHHHHHHHHHHHHH
Confidence 35569999999999999999999999999999877744 6788877777666666666553
No 7
>PF13233 Complex1_LYR_2: Complex1_LYR-like
Probab=97.64 E-value=0.0002 Score=45.93 Aligned_cols=61 Identities=30% Similarity=0.353 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHhcCChHh--------HHHHHHHH----HHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCCc
Q 034609 16 VLSLYRGFLRAARCKSAAD--------RRQIESIV----SAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSPN 79 (89)
Q Consensus 16 VLsLYR~~LR~ar~~p~~~--------R~y~~~~i----R~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~~ 79 (89)
|++|||.+||+.+.+|... +..+..+| +.+|+.+... +|+..+...+...+.=+..++.+.
T Consensus 1 V~~lYR~lLRel~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ef~~~~~~---~~~~~~~~~~~~~~~y~~~L~~qr 73 (104)
T PF13233_consen 1 VLSLYRSLLRELRRYPRRSKIHQLKAPRSPGDQYVLEQARAEFRRHKSA---NDEEEAQEFLQEWENYATFLKNQR 73 (104)
T ss_pred ChHHHHHHHHHHHhhcchhhhhhhhchhHHHHHHHHHHHHHHHhccccc---cchHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999887422 26778888 9999665544 457777777777777777776664
No 8
>KOG3466 consensus NADH:ubiquinone oxidoreductase, NDUFB9/B22 subunit [Energy production and conversion]
Probab=97.15 E-value=0.0022 Score=44.69 Aligned_cols=64 Identities=25% Similarity=0.301 Sum_probs=50.9
Q ss_pred hhHHHHHHHHHHHHHHHhcCCh--HhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCC
Q 034609 11 GLQKQVLSLYRGFLRAARCKSA--ADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSP 78 (89)
Q Consensus 11 ~lq~~VLsLYR~~LR~ar~~p~--~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~ 78 (89)
..+++|+.||+.+||..-.+-. |.=.|..=-||.-|-+|. + .|...+.-||..|+++|=....+
T Consensus 11 shkqkV~rLYKRaLR~lenWy~~rn~yRy~ac~~RARFden~-~---kD~~k~~~LLa~ge~E~w~~rHp 76 (157)
T KOG3466|consen 11 SHKQKVRRLYKRALRDLENWYVHRNIYRYQACIIRARFDEND-E---KDVDKAIRLLAEGERELWEWRHP 76 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHhhhhh-h---hhHHHHHHHHHHHHHHHHhhcCC
Confidence 4578899999999999988762 444466677899995554 5 69999999999999998766544
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=94.94 E-value=0.25 Score=29.19 Aligned_cols=49 Identities=24% Similarity=0.312 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHhcCC--hHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHH
Q 034609 14 KQVLSLYRGFLRAARCKS--AADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLL 65 (89)
Q Consensus 14 ~~VLsLYR~~LR~ar~~p--~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll 65 (89)
.....||..+|+....+| ..+|.+.-..+++-+.--..+ .|.+.||..|
T Consensus 5 ~~L~~lY~~~L~~L~~~P~~a~YR~~tE~it~~Rl~iv~~~---~d~~~iE~~i 55 (57)
T PF04716_consen 5 EALISLYNKTLKALKKIPEDAAYRQYTEAITKHRLKIVEEE---EDIEKIEKKI 55 (57)
T ss_pred HHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHcc---ccHHHHHHHh
Confidence 356789999999999999 499999999999999666766 8999999865
No 10
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=83.50 E-value=8.2 Score=23.81 Aligned_cols=56 Identities=21% Similarity=0.282 Sum_probs=43.0
Q ss_pred HHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhC
Q 034609 21 RGFLRAARCKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQS 77 (89)
Q Consensus 21 R~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~ 77 (89)
-..+-.+.....+....++..+...| ..-+.|++.+++.....|.+.+.+|+.++.
T Consensus 16 ~~~~~~~~~~~~e~e~~~r~~l~~~l-~kldlVtREEFd~q~~~L~~~r~kl~~LEa 71 (79)
T PF04380_consen 16 SEALPAAQGPREEIEKNIRARLQSAL-SKLDLVTREEFDAQKAVLARTREKLEALEA 71 (79)
T ss_pred HHHHHhhhhhHHHHHHHHHHHHHHHH-HHCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444443333466666777888888 778899999999999999999999998864
No 11
>PF02093 Gag_p30: Gag P30 core shell protein; InterPro: IPR003036 P30 is essential for viral assembly []. Cleavage of P70 in vitro can be accompanied by a shift from a concentrically coiled internal strand ("immature") to a collapsed ("mature") form of the virus core [].; GO: 0019068 virion assembly; PDB: 3BP9_U 1U7K_D 2Y4Z_A 1BM4_A.
Probab=71.13 E-value=10 Score=27.96 Aligned_cols=45 Identities=22% Similarity=0.268 Sum_probs=27.5
Q ss_pred HHHHHHHHH----HHHHHhcCC-------------hHhHHHHHHHHHHHHHhhcCCCCcCCHH
Q 034609 14 KQVLSLYRG----FLRAARCKS-------------AADRRQIESIVSAEFRRNSNQVDRKNFL 59 (89)
Q Consensus 14 ~~VLsLYR~----~LR~ar~~p-------------~~~R~y~~~~iR~eFr~~~~~~~~~D~~ 59 (89)
++.|.+||+ -||.|..+| .+.-.-|+.++++.| .....++|.|++
T Consensus 102 ~~~L~~yrq~LL~GLr~aa~Kp~NlsKv~~v~Qg~~EsPs~FLeRL~ea~-r~yTp~dP~~~~ 163 (211)
T PF02093_consen 102 REALRLYRQCLLAGLRGAARKPTNLSKVREVTQGPNESPSAFLERLREAY-RKYTPFDPESPE 163 (211)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-----S--TTTTTGGGHHHHHHHHHHHHH-HHTS--------
T ss_pred HHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHhCCCCCHHHHHHHHHHHH-HhcCCCCCCCCc
Confidence 478999999 467776665 245667999999999 566676666665
No 12
>PRK04820 rnpA ribonuclease P; Reviewed
Probab=68.40 E-value=21 Score=24.57 Aligned_cols=51 Identities=14% Similarity=0.210 Sum_probs=40.7
Q ss_pred hHhHHHHHHHHHHHHHhhcCCC-------------CcCCHHHHHHHHHHHHHHHHHhhCCcccc
Q 034609 32 AADRRQIESIVSAEFRRNSNQV-------------DRKNFLYIEYLLRRGKKQLEQLQSPNTES 82 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~-------------~~~D~~~Ie~ll~~g~~~Le~i~~~~v~~ 82 (89)
...|+-+++.+|+.||.+...+ ...|+..|+.-|...-..+..+..+++++
T Consensus 62 AV~RNRiKR~lRE~fR~~~~~l~~~DiVviar~~~~~~~~~~l~~~l~~LL~k~~~~~~~~~~~ 125 (145)
T PRK04820 62 AVGRNRIKRVLREAMRQLLPELAPGDYVVVARSAAAKASNPQLRDAFLRLLRRAGALPLPAADG 125 (145)
T ss_pred chhHHHHHHHHHHHHHHhhhccCCCCEEEEEeCCcccCCHHHHHHHHHHHHHHhCcccCCCcCC
Confidence 4679999999999998774332 34678889999999998888888887765
No 13
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=63.21 E-value=30 Score=23.85 Aligned_cols=34 Identities=15% Similarity=0.252 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHhcCChHhHHHHHHHHHHHHHhh
Q 034609 13 QKQVLSLYRGFLRAARCKSAADRRQIESIVSAEFRRN 49 (89)
Q Consensus 13 q~~VLsLYR~~LR~ar~~p~~~R~y~~~~iR~eFr~~ 49 (89)
+++-|+.-+..|+ .+|+++++++..+.++-|.+.
T Consensus 3 k~efL~~L~~~L~---~lp~~e~~e~l~~Y~e~f~d~ 36 (181)
T PF08006_consen 3 KNEFLNELEKYLK---KLPEEEREEILEYYEEYFDDA 36 (181)
T ss_pred HHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHh
Confidence 5666766666665 589999999999999999543
No 14
>PRK05629 hypothetical protein; Validated
Probab=57.23 E-value=25 Score=26.30 Aligned_cols=57 Identities=18% Similarity=0.163 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHhcCC--hHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 17 LSLYRGFLRAARCKS--AADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 17 LsLYR~~LR~ar~~p--~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
-++|+.+-+.+-..+ +-....+..||+..|+...-. -+++++++|+...-.+|..+.
T Consensus 108 kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~---i~~~A~~~L~~~~g~dl~~l~ 166 (318)
T PRK05629 108 KSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVR---PTPDVVHALLEGVGSDLRELA 166 (318)
T ss_pred hHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHCccHHHHH
Confidence 356777655554333 334567899999999777766 678999999887766666554
No 15
>COG4877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.79 E-value=33 Score=20.60 Aligned_cols=29 Identities=31% Similarity=0.363 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHH
Q 034609 36 RQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQL 72 (89)
Q Consensus 36 ~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~L 72 (89)
.-+..|+-+|||.-+ ..||.||.++.++-
T Consensus 19 ~Aia~wA~de~RSiN--------aQIE~lL~E~lrq~ 47 (63)
T COG4877 19 AAIAQWAEDEFRSIN--------AQIEILLKEALRQR 47 (63)
T ss_pred HHHHHHHHHHHhhhh--------HHHHHHHHHHHHHh
Confidence 446789999997654 56899999887754
No 16
>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=48.47 E-value=69 Score=20.32 Aligned_cols=23 Identities=26% Similarity=0.421 Sum_probs=19.3
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD 54 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~ 54 (89)
...|+.+++.+|+.||.+...++
T Consensus 56 AV~RNriKR~lRe~~R~~~~~l~ 78 (111)
T PF00825_consen 56 AVKRNRIKRRLREAFRLNKPELP 78 (111)
T ss_dssp HHHHHHHHHHHHHHHHHCTTTS-
T ss_pred hhHHHHHHHHHHHHHHHHHhhcc
Confidence 47899999999999999977664
No 17
>PRK03459 rnpA ribonuclease P; Reviewed
Probab=47.17 E-value=67 Score=21.24 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=30.8
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC--------------cCCHHHHHHHHHHHHHHHHH
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD--------------RKNFLYIEYLLRRGKKQLEQ 74 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~--------------~~D~~~Ie~ll~~g~~~Le~ 74 (89)
...|+-+++.+|+.||.+...++ ..|+..++.-|...-..+..
T Consensus 61 AV~RNRiKR~lRe~~R~~~~~l~~g~D~Viiar~~~~~~~~~~l~~~l~~ll~k~~~ 117 (122)
T PRK03459 61 AVIRHRVSRRLRHICADIVDQVPETHHVVIRALPGAATASSAELERDVRAGLGKLNR 117 (122)
T ss_pred hhHHHHHHHHHHHHHHHhhhccCCCcEEEEEECcccccCCHHHHHHHHHHHHHHhcc
Confidence 46799999999999999866553 24566666666666665543
No 18
>PF09039 HTH_Tnp_Mu_2: Mu DNA binding, I gamma subdomain; InterPro: IPR015126 This domain is responsible for binding the DNA attachment sites at each end of the Mu genome. They adopt a secondary structure comprising a four helix bundle tightly packed around a hydrophobic core consisting of aliphatic and aromatic amino acid residues. Helices 1 and 2 are oriented antiparallel to each other. Helix 3 crosses helices 1 and 2 at angles of 60 and 120 degrees, respectively. Excluding the C-terminal helix 4, the fold of the I-gamma subdomain is remarkably similar to that of the homeodomain family of helix-turn-helix DNA-binding proteins, although their amino acid sequences are completely unrelated []. ; PDB: 2EZL_A 2EZH_A 2EZI_A 2EZK_A.
Probab=46.62 E-value=62 Score=21.11 Aligned_cols=52 Identities=23% Similarity=0.304 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHh--cCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHh
Q 034609 13 QKQVLSLYRGFLRAAR--CKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQL 75 (89)
Q Consensus 13 q~~VLsLYR~~LR~ar--~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i 75 (89)
+-.+-++|+.+.+.|+ .++-....-+.+++..+. +..+.-+.++|+..+..+
T Consensus 48 ~Ps~~~cyrr~~~~a~~~Gw~iPS~~t~rRri~~ev-----------p~~~~vl~ReG~~A~~~~ 101 (108)
T PF09039_consen 48 KPSFSACYRRLKRAAKENGWPIPSEKTLRRRIEREV-----------PEAVIVLAREGEKALKRL 101 (108)
T ss_dssp ---HHHHHHHHHHHHHHHT-----HHHHHHHH-HHH------------CHHHHHHH---------
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhC-----------ChhhhhHhcccHHHHHHH
Confidence 3457789999999996 565455555667776655 344578889998877654
No 19
>PRK00588 rnpA ribonuclease P; Reviewed
Probab=42.28 E-value=32 Score=22.62 Aligned_cols=23 Identities=13% Similarity=0.186 Sum_probs=19.2
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD 54 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~ 54 (89)
...|+-+++.+|+.||.+...++
T Consensus 56 AV~RNRiKR~lRE~~R~~~~~l~ 78 (118)
T PRK00588 56 AVERHRVARRLRHVARPILKELH 78 (118)
T ss_pred hhHHHHHHHHHHHHHHHhhhccC
Confidence 47799999999999999866653
No 20
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=39.51 E-value=1.1e+02 Score=22.00 Aligned_cols=47 Identities=17% Similarity=0.198 Sum_probs=35.1
Q ss_pred HHHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHH
Q 034609 20 YRGFLRAARCKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKK 70 (89)
Q Consensus 20 YR~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~ 70 (89)
...++-...-+|.+.+. ++..+|++|-++... .+++.|..|+.+.+-
T Consensus 16 cs~LIes~~mLp~nvl~-iik~A~~ey~~~Pt~---~Ny~~iKkLf~qtkY 62 (171)
T PF05674_consen 16 CSALIESENMLPDNVLA-IIKTARDEYFENPTD---KNYENIKKLFSQTKY 62 (171)
T ss_pred HHHHHHHhcCCcHHHHH-HHHHHHHHHhcCCCh---hhHHHHHHHHHHhhh
Confidence 34455555667777775 667788888788877 899999999988653
No 21
>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=39.11 E-value=39 Score=21.46 Aligned_cols=22 Identities=23% Similarity=0.519 Sum_probs=18.8
Q ss_pred hHhHHHHHHHHHHHHHhhcCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQV 53 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~ 53 (89)
...|+.+++.+|+.||.+...+
T Consensus 54 AV~RNriKR~lRe~~R~~~~~l 75 (105)
T TIGR00188 54 AVERNRIKRLIREVFRERQELL 75 (105)
T ss_pred hhHHHHHHHHHHHHHHHhhccc
Confidence 4789999999999999887654
No 22
>PRK07914 hypothetical protein; Reviewed
Probab=38.84 E-value=74 Score=23.76 Aligned_cols=56 Identities=16% Similarity=0.096 Sum_probs=38.6
Q ss_pred HHHHHHHHHHh---cCChH-hHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 18 SLYRGFLRAAR---CKSAA-DRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 18 sLYR~~LR~ar---~~p~~-~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
++|+.+-+.+. .+.+. ....+..||++.+++..-. -++++++.|+.....+|..+.
T Consensus 109 k~~K~L~k~g~~~v~~~~~~~~~~l~~wi~~~a~~~g~~---i~~~A~~~L~~~~g~dl~~l~ 168 (320)
T PRK07914 109 ALANQLRKLGAEVHPCARITKAAERADFVRKEFRSLRVK---VDDDTVTALLDAVGSDLRELA 168 (320)
T ss_pred HHHHHHHHCCCEEEecCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHCccHHHHH
Confidence 66776655432 23333 5666799999999777666 578999999887766655544
No 23
>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2.7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.
Probab=36.91 E-value=44 Score=21.99 Aligned_cols=55 Identities=18% Similarity=0.260 Sum_probs=35.1
Q ss_pred HHHHHHHHHh--cCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 19 LYRGFLRAAR--CKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 19 LYR~~LR~ar--~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
+|+.+-+.+. .++...-..+..||++.|++++-. -|++++++|+..-..++..+.
T Consensus 108 ~~k~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~---i~~~a~~~L~~~~~~d~~~l~ 164 (172)
T PF06144_consen 108 LYKALKKQAIVIECKKPKEQELPRWIKERAKKNGLK---IDPDAAQYLIERVGNDLSLLQ 164 (172)
T ss_dssp HHHHHTTTEEEEEE----TTTHHHHHHHHHHHTT-E---E-HHHHHHHHHHHTT-HHHHH
T ss_pred HHHHHhcccceEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhChHHHHHH
Confidence 5555555443 223333445788999999888777 689999999988877776654
No 24
>PRK00499 rnpA ribonuclease P; Reviewed
Probab=36.78 E-value=1.1e+02 Score=19.58 Aligned_cols=45 Identities=20% Similarity=0.276 Sum_probs=31.1
Q ss_pred hHhHHHHHHHHHHHHHhhcCCC--------------CcCCHHHHHHHHHHHHHHHHHhh
Q 034609 32 AADRRQIESIVSAEFRRNSNQV--------------DRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~--------------~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
...|+.+++.+|+.||.+...+ ...|+..++..+...-..+.++.
T Consensus 51 AV~RNriKR~lRE~~R~~~~~~~~~~d~v~i~r~~~~~~~~~~l~~~l~~ll~k~~~~~ 109 (114)
T PRK00499 51 AVVRNRIKRLIRESFRELKDEIKKGYDFVVIARKPAAELDYKEIKKSLIHVLKLAKLLK 109 (114)
T ss_pred hhhHhHHHHHHHHHHHHhhhcccCCceEEEEECCCcccCCHHHHHHHHHHHHHHhCccc
Confidence 4778999999999999885432 23456677777666666665443
No 25
>PRK00038 rnpA ribonuclease P; Reviewed
Probab=36.65 E-value=46 Score=22.18 Aligned_cols=26 Identities=15% Similarity=0.379 Sum_probs=20.5
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCCcCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQVDRKN 57 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~~~D 57 (89)
...|+-+++.+|+.||.+...++.-|
T Consensus 64 AV~RNRiKR~lRE~~R~~~~~l~~~D 89 (123)
T PRK00038 64 AVTRNTLKRVIREAFRARRLALPAQD 89 (123)
T ss_pred chhHHHHHHHHHHHHHHhhccCCCCC
Confidence 47799999999999999877654333
No 26
>PLN02956 PSII-Q subunit
Probab=35.54 E-value=1.7e+02 Score=21.18 Aligned_cols=57 Identities=16% Similarity=0.204 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCC----CcCCHHHHHHHHHHHHHHHHHh
Q 034609 18 SLYRGFLRAARCKSAADRRQIESIVSAEFRRNSNQV----DRKNFLYIEYLLRRGKKQLEQL 75 (89)
Q Consensus 18 sLYR~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~----~~~D~~~Ie~ll~~g~~~Le~i 75 (89)
-|+.++.-....+|++.|..++.-.++-| ++-..+ ...|....+..+.+....|+.+
T Consensus 121 ~Lr~DL~~Ii~slpp~Drk~a~~La~~LF-d~l~~LD~AAR~kd~~~a~k~Y~~tva~lD~V 181 (185)
T PLN02956 121 NLKQDLYAIIQAKPGKDRPQLRRLYSDLF-NSVTKLDYAARDKDETRVWEYYENIVASLDDI 181 (185)
T ss_pred HHHHHHHHHHHhcCHhHhHHHHHHHHHHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 46778888888999999999999988888 552221 1256666777777777666654
No 27
>PRK00396 rnpA ribonuclease P; Reviewed
Probab=34.95 E-value=47 Score=22.32 Aligned_cols=41 Identities=20% Similarity=0.289 Sum_probs=28.9
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC-------------cCCHHHHHHHHHHHHHHH
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD-------------RKNFLYIEYLLRRGKKQL 72 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~-------------~~D~~~Ie~ll~~g~~~L 72 (89)
...|+-+++.+|+.||.+...++ ..|...++..|...-..|
T Consensus 60 AV~RNRiKR~lRE~fR~~~~~l~g~DiVviaR~~~~~~~~~~l~~~l~~ll~kl 113 (130)
T PRK00396 60 AVDRNRLKRLIRESFRLNQHSLAGWDIVVVARKGLGELENPELHQQFGKLWKRL 113 (130)
T ss_pred HhHHHHHHHHHHHHHHHhhccCCCeeEEEEeCCCcccCCHHHHHHHHHHHHHHH
Confidence 57899999999999998876542 245556666665555554
No 28
>PRK00730 rnpA ribonuclease P; Reviewed
Probab=34.20 E-value=46 Score=22.86 Aligned_cols=22 Identities=27% Similarity=0.483 Sum_probs=18.7
Q ss_pred hHhHHHHHHHHHHHHHhhcCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQV 53 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~ 53 (89)
...|+.+++.+|+.||.+...+
T Consensus 59 AV~RNRiKR~lREafR~~~~~l 80 (138)
T PRK00730 59 AHQRNRFKRIVREAFRHVRHNL 80 (138)
T ss_pred chhHHHHHHHHHHHHHHhhccc
Confidence 4789999999999999886654
No 29
>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=33.89 E-value=59 Score=18.11 Aligned_cols=18 Identities=44% Similarity=0.514 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 034609 59 LYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 59 ~~Ie~ll~~g~~~Le~i~ 76 (89)
..|+.||+.+.++||.+-
T Consensus 24 kr~rrLIRaa~k~lealc 41 (44)
T PF08134_consen 24 KRIRRLIRAARKQLEALC 41 (44)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 467889999999998763
No 30
>PRK14865 rnpA ribonuclease P; Provisional
Probab=33.47 E-value=58 Score=21.13 Aligned_cols=22 Identities=27% Similarity=0.366 Sum_probs=18.2
Q ss_pred hHhHHHHHHHHHHHHHhhcCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQV 53 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~ 53 (89)
...|+-+++.+|+.||.+...+
T Consensus 58 AV~RNRiKR~lRE~~R~~~~~l 79 (116)
T PRK14865 58 AVVRNRIKRLVREFYRLNKSLF 79 (116)
T ss_pred chhHHHHHHHHHHHHHHhhccC
Confidence 4788999999999999876554
No 31
>PRK04390 rnpA ribonuclease P; Reviewed
Probab=32.44 E-value=54 Score=21.49 Aligned_cols=42 Identities=19% Similarity=0.206 Sum_probs=29.1
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC-------------cCCHHHHHHHHHHHHHHHH
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD-------------RKNFLYIEYLLRRGKKQLE 73 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~-------------~~D~~~Ie~ll~~g~~~Le 73 (89)
...|+-+++.+|+.||.+...++ ..|+..++..|...-..+.
T Consensus 58 AV~RNRiKR~lRE~~R~~~~~l~~~DiVvi~r~~~~~~~~~~l~~~l~~ll~k~~ 112 (120)
T PRK04390 58 AVERNYMKRVIREWFRLNQHRLPPVDFVVRVQRKFDRATAKQAVAELAQLMAKLP 112 (120)
T ss_pred hhhhhHHHHHHHHHHHhccccCCCceEEEEeCCCcccCCHHHHHHHHHHHHHHHH
Confidence 47799999999999998765542 3456666666665555443
No 32
>PRK01732 rnpA ribonuclease P; Reviewed
Probab=32.43 E-value=53 Score=21.39 Aligned_cols=24 Identities=21% Similarity=0.458 Sum_probs=19.5
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCCc
Q 034609 32 AADRRQIESIVSAEFRRNSNQVDR 55 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~~ 55 (89)
...|+-+++.+|+.||.+...++.
T Consensus 59 AV~RNriKR~lRe~~R~~~~~l~~ 82 (114)
T PRK01732 59 AHERNRIKRLTRESFRLHQHELPA 82 (114)
T ss_pred hhHHHHHHHHHHHHHHHhhhcCCC
Confidence 578899999999999988766543
No 33
>PRK05907 hypothetical protein; Provisional
Probab=30.09 E-value=90 Score=23.76 Aligned_cols=44 Identities=7% Similarity=0.007 Sum_probs=32.2
Q ss_pred cCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHH-HHHHHHh
Q 034609 29 CKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRG-KKQLEQL 75 (89)
Q Consensus 29 ~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g-~~~Le~i 75 (89)
.|++..-..+..||.+.|++.+-. -+++++++++... ..+|..+
T Consensus 130 e~~~l~e~~L~~Wi~~~~~~~g~~---i~~~a~~~L~~~~~~~nL~~l 174 (311)
T PRK05907 130 EWFADRDKRIAQLLIQRAKELGIS---CSLGLASLFVSKFPQTGLFEI 174 (311)
T ss_pred ccCCCCHHHHHHHHHHHHHHcCCC---cCHHHHHHHHHHccCCCHHHH
Confidence 355555567899999999888777 6789999999866 3454443
No 34
>PRK01903 rnpA ribonuclease P; Reviewed
Probab=28.73 E-value=49 Score=22.27 Aligned_cols=23 Identities=17% Similarity=0.361 Sum_probs=19.6
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD 54 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~ 54 (89)
...|+.+++.+|+.||.+...++
T Consensus 64 AV~RNRiKR~lREa~R~~~~~l~ 86 (133)
T PRK01903 64 AVKRNRIKRLMREAYRLEKHVLL 86 (133)
T ss_pred hhhhhHHHHHHHHHHHHhHhhhc
Confidence 46899999999999999877654
No 35
>PRK10635 bacterioferritin; Provisional
Probab=28.30 E-value=1.7e+02 Score=19.99 Aligned_cols=34 Identities=15% Similarity=0.059 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHh-cCChHhHHHHHHHHHHHH
Q 034609 13 QKQVLSLYRGFLRAAR-CKSAADRRQIESIVSAEF 46 (89)
Q Consensus 13 q~~VLsLYR~~LR~ar-~~p~~~R~y~~~~iR~eF 46 (89)
-+.|+..|+.+++.|. ..++..|.-+...+.+|=
T Consensus 94 E~~ai~~y~e~i~~a~~~~D~~s~~ll~~iL~dEe 128 (158)
T PRK10635 94 ELEGAKDLREAIAYADSVHDYVSRDMMIEILADEE 128 (158)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 4678999999999998 467788877777666654
No 36
>PRK03031 rnpA ribonuclease P; Reviewed
Probab=26.70 E-value=1.8e+02 Score=18.99 Aligned_cols=42 Identities=21% Similarity=0.154 Sum_probs=28.3
Q ss_pred hHhHHHHHHHHHHHHHhhcCCCC--------------cCCHHHHHHHHHHHHHHHH
Q 034609 32 AADRRQIESIVSAEFRRNSNQVD--------------RKNFLYIEYLLRRGKKQLE 73 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~~~~~--------------~~D~~~Ie~ll~~g~~~Le 73 (89)
...|+.+++.+|+.||.+...++ ..|...++.-|...-+.+.
T Consensus 61 AV~RNriKR~lRe~~R~~~~~l~~g~diVvi~r~~~~~~~~~~l~~~l~~ll~k~~ 116 (122)
T PRK03031 61 AVVRNRIKRQIRAALRQLLPRIAPGWDLVIIVKPTAAECNYEQFLQELEQLLIQAE 116 (122)
T ss_pred hhhhhHHHHHHHHHHHHhhhccCCCceEEEEECCCcccCCHHHHHHHHHHHHHHcc
Confidence 57899999999999988754442 2355566665555555544
No 37
>PRK08507 prephenate dehydrogenase; Validated
Probab=26.64 E-value=1.3e+02 Score=21.81 Aligned_cols=22 Identities=14% Similarity=0.274 Sum_probs=16.0
Q ss_pred CCCcCCHHHHHHHHHHHHHHHH
Q 034609 52 QVDRKNFLYIEYLLRRGKKQLE 73 (89)
Q Consensus 52 ~~~~~D~~~Ie~ll~~g~~~Le 73 (89)
.+...|.+.++.++.+|+..-+
T Consensus 252 ~l~~~d~~~~~~~~~~~~~~r~ 273 (275)
T PRK08507 252 LIENEDWEELEEWMEQANKLRE 273 (275)
T ss_pred HHHcCCHHHHHHHHHHHHHHHh
Confidence 3344788899999998887544
No 38
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=26.27 E-value=1.8e+02 Score=21.34 Aligned_cols=53 Identities=11% Similarity=0.196 Sum_probs=35.5
Q ss_pred HHHHHHHHh--cCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHh
Q 034609 20 YRGFLRAAR--CKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQL 75 (89)
Q Consensus 20 YR~~LR~ar--~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i 75 (89)
|+.+-..+. .+++.....+..||+..|++.+-. -+++++++|+.....++..+
T Consensus 131 ~k~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~---i~~~a~~~L~~~~~~d~~~l 185 (340)
T PRK05574 131 FKALKKKAVVVEAQPPKEAELPQWIQQRLKQQGLQ---IDAAALQLLAERVEGNLLAL 185 (340)
T ss_pred HHHHHhCceEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCchHHHH
Confidence 555544343 334445667899999999877767 57888888887755444433
No 39
>KOG2873 consensus Ubiquinol cytochrome c reductase assembly protein CBP3 [Energy production and conversion]
Probab=25.48 E-value=3.2e+02 Score=21.12 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=41.6
Q ss_pred cCChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCCcccccc
Q 034609 29 CKSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSPNTESLS 84 (89)
Q Consensus 29 ~~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~~v~~~~ 84 (89)
.+-.+++.-...-=|.-| .++.. .|+.++|.+.+.-..++.++...+..++-
T Consensus 214 G~l~dD~vLA~alWRnlF-~~r~~---~D~~hle~vV~YvR~qv~~Ls~l~t~dfi 265 (284)
T KOG2873|consen 214 GFLSDDRVLATALWRNLF-SGRGN---VDLVHLEAVVRYVRSQVYSLSSLSTDDFI 265 (284)
T ss_pred cccccchHHHHHHHHHHh-CCCCC---cCHHHHHHHHHHHHHHHHHHhccChhhhh
Confidence 333566766666668889 66667 89999999999999999999999887753
No 40
>COG0594 RnpA RNase P protein component [Translation, ribosomal structure and biogenesis]
Probab=23.25 E-value=92 Score=20.40 Aligned_cols=19 Identities=26% Similarity=0.511 Sum_probs=15.9
Q ss_pred hHhHHHHHHHHHHHHHhhc
Q 034609 32 AADRRQIESIVSAEFRRNS 50 (89)
Q Consensus 32 ~~~R~y~~~~iR~eFr~~~ 50 (89)
...|..+++.+|+.||...
T Consensus 55 AV~RNRiKR~iRe~~r~~~ 73 (117)
T COG0594 55 AVERNRIKRLIREAFRLLQ 73 (117)
T ss_pred hhhHHHHHHHHHHHHHhhh
Confidence 4778899999999998744
No 41
>KOG4754 consensus Predicted phosphoglycerate mutase [Carbohydrate transport and metabolism]
Probab=23.20 E-value=90 Score=23.55 Aligned_cols=32 Identities=19% Similarity=0.055 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHhhCCccccccccccC
Q 034609 58 FLYIEYLLRRGKKQLEQLQSPNTESLSQTKQS 89 (89)
Q Consensus 58 ~~~Ie~ll~~g~~~Le~i~~~~v~~~~~~~~~ 89 (89)
.+.++..+.+|+.-++++..-.-+.|++||||
T Consensus 158 ~ed~e~~a~r~re~~~~l~~r~ek~iavvths 189 (248)
T KOG4754|consen 158 REDDEESAARSREFLEWLAKRPEKEIAVVTHS 189 (248)
T ss_pred hhhHHHHHHhHHHHHHHHHhCccceEEEEEeh
Confidence 46678899999999999999999999999996
No 42
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=22.48 E-value=72 Score=18.06 Aligned_cols=15 Identities=33% Similarity=0.541 Sum_probs=13.2
Q ss_pred CHHHHHHHHHHHHHH
Q 034609 57 NFLYIEYLLRRGKKQ 71 (89)
Q Consensus 57 D~~~Ie~ll~~g~~~ 71 (89)
||..|++|.+++...
T Consensus 32 dP~li~~L~~R~~~~ 46 (49)
T PF08621_consen 32 DPKLIEFLKKRANKK 46 (49)
T ss_pred CHHHHHHHHHhhhcc
Confidence 899999999998764
No 43
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=21.74 E-value=1.7e+02 Score=20.91 Aligned_cols=42 Identities=7% Similarity=0.053 Sum_probs=30.6
Q ss_pred CChHhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHH
Q 034609 30 KSAADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQ 74 (89)
Q Consensus 30 ~p~~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~ 74 (89)
++......+..+|++.|.+.+-. -+++++++++.....++..
T Consensus 108 ~~~~~~~~~~~~i~~~~~~~g~~---i~~~a~~~l~~~~~~d~~~ 149 (302)
T TIGR01128 108 CKTPKEQELPRWIQARLKKLGLR---IDPDAVQLLAELVEGNLLA 149 (302)
T ss_pred ecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCcHHHH
Confidence 33556677889999999777666 5788899887766555443
No 44
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=21.60 E-value=1.3e+02 Score=22.45 Aligned_cols=40 Identities=10% Similarity=-0.005 Sum_probs=30.1
Q ss_pred HhHHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHh
Q 034609 33 ADRRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQL 75 (89)
Q Consensus 33 ~~R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i 75 (89)
.....+..||+..|++..-. -|++++++|+.....+|..+
T Consensus 142 ~~~~~l~~~i~~~~~~~g~~---i~~~a~~~L~~~~g~dl~~l 181 (343)
T PRK06585 142 DDERDLARLIDDELAEAGLR---ITPDARALLVALLGGDRLAS 181 (343)
T ss_pred CCHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHhCCCHHHH
Confidence 34556889999999777766 57899999988776655433
No 45
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.56 E-value=3.5e+02 Score=20.77 Aligned_cols=60 Identities=13% Similarity=0.111 Sum_probs=39.0
Q ss_pred CchhhHHHHHHHHHHHHHHHhcCC---hHhHHHHHHHHHHHHHhhcC-CCCcCCHHHHHHHHHHHHHHH
Q 034609 8 RLSGLQKQVLSLYRGFLRAARCKS---AADRRQIESIVSAEFRRNSN-QVDRKNFLYIEYLLRRGKKQL 72 (89)
Q Consensus 8 r~s~lq~~VLsLYR~~LR~ar~~p---~~~R~y~~~~iR~eFr~~~~-~~~~~D~~~Ie~ll~~g~~~L 72 (89)
+....|-.+++ +.+...-..|. .++|+..+.+|+.-+.--.. . ++-+.|+.++..|.-+.
T Consensus 119 r~rrtq~~~~~--kkf~~~M~~f~~~~~~~r~~~k~~i~Rql~i~~~~~---~~de~ie~~ie~g~~~~ 182 (297)
T KOG0810|consen 119 RTRRTQTSALS--KKLKELMNEFNRTQSKYREEYKERIQRQLFIVGGEE---TTDEEIEEMIESGGSEV 182 (297)
T ss_pred hhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCc---CChHHHHHHHHCCChHH
Confidence 33334444444 77777777776 47777777776555434444 5 77899999998876543
No 46
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=21.38 E-value=3.3e+02 Score=19.81 Aligned_cols=57 Identities=14% Similarity=0.196 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhcCChHhHHHHHHHHHHHHHhhcCCC----CcCCHHHHHHHHHHHHHHHHHh
Q 034609 18 SLYRGFLRAARCKSAADRRQIESIVSAEFRRNSNQV----DRKNFLYIEYLLRRGKKQLEQL 75 (89)
Q Consensus 18 sLYR~~LR~ar~~p~~~R~y~~~~iR~eFr~~~~~~----~~~D~~~Ie~ll~~g~~~Le~i 75 (89)
-||-++-..+..+|.+.+..++.....-| .+-..+ ...|...++..+.+....|+.+
T Consensus 137 ~Lr~DL~~liss~p~~~kk~l~~La~~lf-~~ie~LD~Aar~K~~~~a~~~Y~~t~~~Ldev 197 (202)
T PF05757_consen 137 YLRYDLNTLISSKPKDEKKALTDLANKLF-DNIEELDYAARSKDVPEAEKYYADTVKALDEV 197 (202)
T ss_dssp CHHHHHHHHHCCS-HHHHHHHHHHHHHHH-HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 47888888899999888888888777777 431111 2277888888888888887765
No 47
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=21.25 E-value=1.7e+02 Score=21.95 Aligned_cols=39 Identities=8% Similarity=-0.011 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhh
Q 034609 35 RRQIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQ 76 (89)
Q Consensus 35 R~y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~ 76 (89)
...+..||++.|++.+-. -|+++++.|+.....+|..+.
T Consensus 137 ~~~l~~~i~~~~~~~g~~---i~~~a~~~L~~~~g~dl~~l~ 175 (328)
T PRK08487 137 AREALELLQERAKELGLD---IDQNALNHLYFIHNEDLALAA 175 (328)
T ss_pred HHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHhCcHHHHHH
Confidence 455899999999887767 678999999988766665543
No 48
>PLN02540 methylenetetrahydrofolate reductase
Probab=20.93 E-value=3.7e+02 Score=22.64 Aligned_cols=44 Identities=9% Similarity=0.112 Sum_probs=27.2
Q ss_pred HHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCCcccccccccc
Q 034609 41 IVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSPNTESLSQTKQ 88 (89)
Q Consensus 41 ~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~~v~~~~~~~~ 88 (89)
++.+.+ +.... .|...-+.=+.-+-...+.|...+|.++|.+|-
T Consensus 227 ~i~~rL-e~~kd---dde~v~~~Gieia~e~~~~L~~~Gv~GiHfYTl 270 (565)
T PLN02540 227 EITAAL-EPIKD---NDEAVKAYGIHLGTEMCKKILAHGIKGLHLYTL 270 (565)
T ss_pred HHHHHH-HhcCC---CHHHHHHHHHHHHHHHHHHHHHcCCCEEEECcc
Confidence 455555 33222 334334455666667777777778999998874
No 49
>KOG1107 consensus Membrane coat complex Retromer, subunit VPS35 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.71 E-value=3.2e+02 Score=23.95 Aligned_cols=62 Identities=21% Similarity=0.184 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHhcCChHhHH-----HHHHHHHHHHHhhcCCCCcCCHHHHHHHHHHHHHHHHHhhCC
Q 034609 14 KQVLSLYRGFLRAARCKSAADRR-----QIESIVSAEFRRNSNQVDRKNFLYIEYLLRRGKKQLEQLQSP 78 (89)
Q Consensus 14 ~~VLsLYR~~LR~ar~~p~~~R~-----y~~~~iR~eFr~~~~~~~~~D~~~Ie~ll~~g~~~Le~i~~~ 78 (89)
+.|+..++..||-|..+-.+.+. ++..+-=..|.....+ -.+..|+.|+..-+.++.-++..
T Consensus 657 kRVleCLkkAlkIA~qcmd~~~~vqLFIEILnrYiYfyek~n~~---iti~~I~~LI~lik~n~~~l~~s 723 (760)
T KOG1107|consen 657 KRVLECLKKALKIAQQCMDNLRQVQLFIEILNRYIYFYEKGNDG---ITIKHIESLIKLIKTNAKSLKSS 723 (760)
T ss_pred HHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHhhhhcCCCc---ccHHHHHHHHHHHHhhhhhcccc
Confidence 56999999999999877654442 3455555677666666 45899999999999998888876
No 50
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=20.14 E-value=1.2e+02 Score=18.59 Aligned_cols=18 Identities=17% Similarity=0.276 Sum_probs=13.9
Q ss_pred cCChHhHHHHHHHHHHHH
Q 034609 29 CKSAADRRQIESIVSAEF 46 (89)
Q Consensus 29 ~~p~~~R~y~~~~iR~eF 46 (89)
.++.+++.|+...+|++|
T Consensus 51 ~~~~sY~ryL~n~lRe~f 68 (80)
T PF14714_consen 51 LLPESYKRYLENQLREAF 68 (80)
T ss_dssp C--HHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHC
Confidence 345788999999999998
Done!