Query 034559
Match_columns 91
No_of_seqs 17 out of 19
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 04:07:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4797 Transcriptional regula 86.0 0.96 2.1E-05 33.2 3.2 26 43-68 49-74 (123)
2 PF12940 RAG1: Recombination-a 85.3 1.2 2.7E-05 38.2 4.0 60 6-69 12-77 (442)
3 PRK13991 cell division topolog 79.3 3.4 7.3E-05 28.0 3.6 36 39-74 27-65 (87)
4 PRK13987 cell division topolog 75.2 4.4 9.6E-05 27.6 3.3 35 39-74 25-62 (91)
5 TIGR01215 minE cell division t 65.9 8.2 0.00018 25.4 2.9 35 38-73 25-62 (81)
6 PRK13989 cell division topolog 63.9 8.4 0.00018 25.7 2.7 36 38-74 25-65 (84)
7 PRK00745 4-oxalocrotonate taut 60.7 11 0.00024 21.8 2.5 33 43-75 12-55 (62)
8 COG3586 Uncharacterized conser 58.4 6.8 0.00015 28.0 1.6 16 54-69 2-17 (101)
9 cd08874 START_STARD9-like C-te 54.6 8.2 0.00018 28.6 1.6 34 53-86 2-39 (205)
10 PF08172 CASP_C: CASP C termin 53.9 11 0.00023 29.2 2.2 19 54-72 107-125 (248)
11 COG1250 FadB 3-hydroxyacyl-CoA 52.7 8.2 0.00018 30.9 1.4 51 11-65 3-56 (307)
12 PRK00296 minE cell division to 52.0 22 0.00047 23.7 3.2 33 40-73 27-63 (86)
13 PF08776 VASP_tetra: VASP tetr 51.6 19 0.00041 22.0 2.6 15 49-63 6-20 (40)
14 PRK13990 cell division topolog 48.7 14 0.00031 25.3 1.9 24 46-70 43-66 (90)
15 PF13434 K_oxygenase: L-lysine 48.1 16 0.00034 28.5 2.3 16 75-90 213-228 (341)
16 PF01361 Tautomerase: Tautomer 46.3 23 0.00049 20.5 2.3 36 40-75 12-54 (60)
17 PRK13988 cell division topolog 45.0 30 0.00066 23.8 3.1 34 39-73 29-65 (97)
18 COG0216 PrfA Protein chain rel 43.2 43 0.00094 28.3 4.3 43 18-60 234-286 (363)
19 PF03748 FliL: Flagellar basal 42.6 33 0.00072 21.2 2.8 20 44-63 64-83 (99)
20 TIGR00013 taut 4-oxalocrotonat 42.1 13 0.00027 21.5 0.7 36 40-75 13-55 (63)
21 cd01278 aprataxin_related apra 39.5 66 0.0014 20.1 3.8 19 66-84 78-104 (104)
22 COG0537 Hit Diadenosine tetrap 38.4 35 0.00076 23.6 2.6 33 54-87 66-106 (138)
23 TIGR00989 3a0801s07tom40 mitoc 37.5 27 0.00058 26.1 2.0 26 56-81 7-33 (161)
24 PF14819 QueF_N: Nitrile reduc 36.7 13 0.00028 26.7 0.2 39 26-64 52-107 (110)
25 KOG1268 Glucosamine 6-phosphat 36.7 35 0.00075 31.0 2.9 22 32-53 480-501 (670)
26 TIGR03042 PS_II_psbQ_bact phot 36.6 37 0.0008 24.9 2.6 29 46-74 36-67 (142)
27 TIGR00436 era GTP-binding prot 36.5 30 0.00066 25.3 2.2 36 29-64 166-201 (270)
28 PF08279 HTH_11: HTH domain; 35.8 21 0.00045 20.1 1.0 23 58-89 31-54 (55)
29 PF11387 DUF2795: Protein of u 34.8 97 0.0021 18.1 3.9 25 29-60 2-31 (44)
30 PF14772 NYD-SP28: Sperm tail 34.2 62 0.0013 21.1 3.2 21 40-60 70-90 (104)
31 COG1159 Era GTPase [General fu 33.6 29 0.00063 28.3 1.8 54 29-82 174-231 (298)
32 COG0851 MinE Septum formation 32.7 46 0.00099 23.1 2.4 34 37-71 24-61 (88)
33 PRK00089 era GTPase Era; Revie 32.4 37 0.00079 24.8 2.0 36 29-64 173-208 (292)
34 cd01276 PKCI_related Protein K 32.1 87 0.0019 19.4 3.5 10 76-85 95-104 (104)
35 PRK02220 4-oxalocrotonate taut 31.3 74 0.0016 18.2 2.9 33 43-75 12-55 (61)
36 COG0858 RbfA Ribosome-binding 30.4 72 0.0016 22.2 3.1 24 42-65 5-28 (118)
37 PF00472 RF-1: RF-1 domain; I 30.0 83 0.0018 21.2 3.3 39 26-64 34-79 (113)
38 cd00491 4Oxalocrotonate_Tautom 29.1 55 0.0012 18.3 2.0 35 41-75 13-54 (58)
39 PF03776 MinE: Septum formatio 28.7 64 0.0014 20.4 2.5 25 46-71 25-49 (70)
40 PF01564 Spermine_synth: Sperm 28.0 44 0.00096 24.9 1.9 59 12-82 78-136 (246)
41 PF03726 PNPase: Polyribonucle 27.4 79 0.0017 19.6 2.7 19 44-62 26-44 (83)
42 PRK15494 era GTPase Era; Provi 26.9 48 0.001 25.7 1.9 35 29-63 218-252 (339)
43 COG2379 GckA Putative glycerat 26.6 1.2E+02 0.0025 26.3 4.3 46 15-66 117-166 (422)
44 PRK08475 F0F1 ATP synthase sub 26.5 90 0.002 22.2 3.1 32 39-70 126-158 (167)
45 PF13744 HTH_37: Helix-turn-he 25.2 1.3E+02 0.0027 18.7 3.3 17 50-66 14-30 (80)
46 PRK00961 H(2)-dependent methyl 25.1 69 0.0015 27.1 2.6 38 45-84 82-123 (342)
47 PF10637 Ofd1_CTDD: Oxoglutara 24.6 26 0.00056 27.6 0.1 29 51-79 39-80 (266)
48 PRK03195 hypothetical protein; 24.4 72 0.0016 24.1 2.4 29 48-76 136-164 (186)
49 PRK10687 purine nucleoside pho 24.0 1.4E+02 0.0031 20.2 3.6 23 64-86 76-108 (119)
50 PRK13817 ribosome-binding fact 23.1 1.1E+02 0.0024 21.0 3.0 24 42-65 3-26 (119)
51 PF10440 WIYLD: Ubiquitin-bind 23.0 1.4E+02 0.003 19.5 3.3 31 42-73 9-45 (65)
52 TIGR01723 hmd_TIGR 5,10-methen 22.9 86 0.0019 26.5 2.8 38 45-84 80-121 (340)
53 TIGR03232 benzo_1_2_benB benzo 22.7 71 0.0015 22.6 2.0 27 58-85 59-87 (155)
54 PF09036 Bcr-Abl_Oligo: Bcr-Ab 22.7 48 0.001 22.9 1.1 20 55-74 59-78 (79)
55 PF06013 WXG100: Proteins of 1 22.6 67 0.0015 18.2 1.6 18 54-72 25-42 (86)
56 PRK14103 trans-aconitate 2-met 22.4 2.1E+02 0.0045 20.6 4.4 37 48-86 217-253 (255)
57 PF07852 DUF1642: Protein of u 21.8 48 0.001 22.7 1.0 19 56-74 116-134 (138)
58 PF13660 DUF4147: Domain of un 21.6 79 0.0017 24.5 2.2 61 16-83 122-188 (238)
59 PF05990 DUF900: Alpha/beta hy 21.6 1.6E+02 0.0035 21.7 3.8 15 75-89 90-105 (233)
60 COG1730 GIM5 Predicted prefold 21.6 1.2E+02 0.0025 22.2 3.0 27 35-61 93-119 (145)
61 PF07218 RAP1: Rhoptry-associa 21.5 1.4E+02 0.003 27.7 4.0 29 41-69 222-250 (782)
62 COG2178 Predicted RNA-binding 21.4 1.5E+02 0.0033 23.3 3.8 37 29-65 155-200 (204)
63 PF03250 Tropomodulin: Tropomo 21.3 79 0.0017 23.7 2.1 27 45-71 18-44 (147)
64 TIGR02457 TreS_Cterm trehalose 20.8 2.4E+02 0.0053 24.2 5.1 18 27-44 304-321 (528)
65 TIGR00082 rbfA ribosome-bindin 20.3 1.5E+02 0.0033 20.1 3.2 25 42-66 4-28 (114)
66 PRK13815 ribosome-binding fact 20.0 1.4E+02 0.003 20.7 3.0 24 42-65 3-26 (122)
No 1
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=86.02 E-value=0.96 Score=33.22 Aligned_cols=26 Identities=27% Similarity=0.571 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhccccc
Q 034559 43 RKDEALQVLRSDLMATLNKEVKSLDE 68 (91)
Q Consensus 43 RKDeam~~LKsdlmaaL~kEVKsLde 68 (91)
.-+.||+..|+-||=|.+.||.-|-+
T Consensus 49 KIeQAMDLVKtHLmfAVREEVe~Lk~ 74 (123)
T KOG4797|consen 49 KIEQAMDLVKTHLMFAVREEVEVLKE 74 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34789999999999999999876543
No 2
>PF12940 RAG1: Recombination-activation protein 1 (RAG1); InterPro: IPR024627 This entry represents recombination activating protein 1 (RAG1), which is the catalytic component of the RAG complex. The RAG complex is a multi-protein complex that mediates DNA cleavage during V(D)J (variable-diversity-joining) recombination []. RAG1 mediates DNA-binding to the conserved recombination signal sequences (RSS) []. Many of the proteins recognised by this entry are fragments.; GO: 0043565 sequence-specific DNA binding, 0033151 V(D)J recombination
Probab=85.32 E-value=1.2 Score=38.16 Aligned_cols=60 Identities=35% Similarity=0.428 Sum_probs=45.0
Q ss_pred CCCcceeccceecC--CCCCcccccccCCCCCCcchhhhhhHHHHH----HHHHHHHHHHHHHhcccccC
Q 034559 6 PANSSISTTPLVGG--GSSSNNTATDEFHFPSDLISIQDRKDEALQ----VLRSDLMATLNKEVKSLDED 69 (91)
Q Consensus 6 PA~S~vSttav~gg--ggs~~~~a~ddfhfp~D~is~~~RKDeam~----~LKsdlmaaL~kEVKsLdeD 69 (91)
||--.|||..=||= |=|.-+.++||+ |+|-|.-.+|-|.|+. .|.+|||+-|++ ..||+.
T Consensus 12 p~lknvs~s~~vgIi~glsgw~ssvdd~--p~dtItrrFrYdvALvsaLkDlEEdImEGLre--~gleds 77 (442)
T PF12940_consen 12 PALKNVSTSCDVGIINGLSGWASSVDDS--PADTITRRFRYDVALVSALKDLEEDIMEGLRE--SGLEDS 77 (442)
T ss_pred CcccccCCcCcccceeccCCCcccccCC--cchhhhhhccchHHHHHHHHHHHHHHHHhHhh--cCcccc
Confidence 56667777765553 226677889998 8899999999999875 566799999976 355554
No 3
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=79.31 E-value=3.4 Score=27.99 Aligned_cols=36 Identities=19% Similarity=0.402 Sum_probs=29.4
Q ss_pred hhhhhh---HHHHHHHHHHHHHHHHHHhcccccCCcccc
Q 034559 39 SIQDRK---DEALQVLRSDLMATLNKEVKSLDEDNWMFE 74 (91)
Q Consensus 39 s~~~RK---Deam~~LKsdlmaaL~kEVKsLdeD~W~F~ 74 (91)
=+++|. -+.|..||.||++.+.|=|..+|+|+-.+.
T Consensus 27 LahdR~~~~p~~l~~lk~eil~VIsKYv~~Id~~~i~V~ 65 (87)
T PRK13991 27 LVHDRVKLTPEMMEQMKADLAEVIKRYVPAIDAEAIEVT 65 (87)
T ss_pred HHHHcCCCCHHHHHHHHHHHHHHHHHHhcccCccceEEE
Confidence 345554 578899999999999999998999887554
No 4
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=75.19 E-value=4.4 Score=27.61 Aligned_cols=35 Identities=23% Similarity=0.526 Sum_probs=28.1
Q ss_pred hhhhhh---HHHHHHHHHHHHHHHHHHhcccccCCcccc
Q 034559 39 SIQDRK---DEALQVLRSDLMATLNKEVKSLDEDNWMFE 74 (91)
Q Consensus 39 s~~~RK---Deam~~LKsdlmaaL~kEVKsLdeD~W~F~ 74 (91)
=++||. .+.|..||.||++.+.|=|. +|+++-.++
T Consensus 25 La~dR~~~sp~~l~~lk~eIl~VI~kYv~-Id~~~v~i~ 62 (91)
T PRK13987 25 LIHDRGDISPDVLEMIKEDILKVISKYVE-IDNEDVDIK 62 (91)
T ss_pred HHHHcCCCCHHHHHHHHHHHHHHHHHhee-eCccceEEE
Confidence 345555 68899999999999999887 788876654
No 5
>TIGR01215 minE cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites.
Probab=65.93 E-value=8.2 Score=25.39 Aligned_cols=35 Identities=29% Similarity=0.427 Sum_probs=26.8
Q ss_pred chhhhhh---HHHHHHHHHHHHHHHHHHhcccccCCccc
Q 034559 38 ISIQDRK---DEALQVLRSDLMATLNKEVKSLDEDNWMF 73 (91)
Q Consensus 38 is~~~RK---Deam~~LKsdlmaaL~kEVKsLdeD~W~F 73 (91)
|=+++|. .+.|..||.||++.+.|=|+ +|+++-.+
T Consensus 25 iL~~dR~~~~p~~l~~mk~dil~VIskY~~-id~~~v~v 62 (81)
T TIGR01215 25 ILAHDRAQLAPEYLEELRKEILEVISKYVE-IDPEMVEV 62 (81)
T ss_pred HHHHHhcCCCHHHHHHHHHHHHHHHHHhee-cchHhEEE
Confidence 3445665 68899999999999999887 66666553
No 6
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=63.93 E-value=8.4 Score=25.70 Aligned_cols=36 Identities=28% Similarity=0.431 Sum_probs=27.6
Q ss_pred chhhhhhH-----HHHHHHHHHHHHHHHHHhcccccCCcccc
Q 034559 38 ISIQDRKD-----EALQVLRSDLMATLNKEVKSLDEDNWMFE 74 (91)
Q Consensus 38 is~~~RKD-----eam~~LKsdlmaaL~kEVKsLdeD~W~F~ 74 (91)
|=+++|.+ +.|..||.||++.+.|=|. +|.|+-.++
T Consensus 25 iLa~dR~~~~~~p~~l~~lk~dil~VIsKYv~-Id~~~v~i~ 65 (84)
T PRK13989 25 IIAHERVGGRQPPDYLPALQKELVAVISKYVK-ISPDDIRVS 65 (84)
T ss_pred HHHHHccCCCCCHHHHHHHHHHHHHHHHHhee-eCccceEEE
Confidence 34556643 6889999999999999887 687776654
No 7
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=60.68 E-value=11 Score=21.80 Aligned_cols=33 Identities=18% Similarity=0.376 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHHHHH-----------hcccccCCccccc
Q 034559 43 RKDEALQVLRSDLMATLNKE-----------VKSLDEDNWMFEG 75 (91)
Q Consensus 43 RKDeam~~LKsdlmaaL~kE-----------VKsLdeD~W~F~~ 75 (91)
|-+|..+.|=..|-++|.+. +...+.++|.|.|
T Consensus 12 rs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~gG 55 (62)
T PRK00745 12 RTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWATGG 55 (62)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeECC
Confidence 55566666666666666554 3467889999876
No 8
>COG3586 Uncharacterized conserved protein [Function unknown]
Probab=58.36 E-value=6.8 Score=28.00 Aligned_cols=16 Identities=44% Similarity=0.729 Sum_probs=14.8
Q ss_pred HHHHHHHHHhcccccC
Q 034559 54 DLMATLNKEVKSLDED 69 (91)
Q Consensus 54 dlmaaL~kEVKsLdeD 69 (91)
||.++|++|++.||+|
T Consensus 2 eLfe~~r~~ilaLd~~ 17 (101)
T COG3586 2 ELFEALRKEILALDPD 17 (101)
T ss_pred hHHHHHHHHHHhcCCc
Confidence 6889999999999998
No 9
>cd08874 START_STARD9-like C-terminal START domain of mammalian STARD9, and related domains; lipid binding. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD9 (also known as KIAA1300), and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C /PITP /Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Some members of this subfamily have N-terminal kinesin motor domains. STARD9 interacts with supervillin, a protein important for efficient cytokinesis, perhaps playing a role in coordinating microtubule motors with actin and myosin II functions at membranes. The human gene encoding STARD9 lies within a target region for LGMD2A, an autosomal recessive form of limb-girdle muscular dystrophy.
Probab=54.57 E-value=8.2 Score=28.63 Aligned_cols=34 Identities=15% Similarity=0.299 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhccc----ccCCcccccccceeEeeecC
Q 034559 53 SDLMATLNKEVKSL----DEDNWMFEGPRSHIHLISTA 86 (91)
Q Consensus 53 sdlmaaL~kEVKsL----deD~W~F~~prSrI~LiSr~ 86 (91)
+++||+.+--|.+| |+++|+|...+..|-+-+++
T Consensus 2 ~~~~~~~~~n~~~l~~~~~~~gW~l~~~~~gI~Vy~k~ 39 (205)
T cd08874 2 SIVMAACSVNLSNLDQCQATAGWSYQCLEKDVVIYYKV 39 (205)
T ss_pred chhhhhhhhhHHHHHhhhccCCcEEEecCCCEEEEEec
Confidence 57888888877776 68999999999999999986
No 10
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=53.91 E-value=11 Score=29.23 Aligned_cols=19 Identities=37% Similarity=0.532 Sum_probs=16.3
Q ss_pred HHHHHHHHHhcccccCCcc
Q 034559 54 DLMATLNKEVKSLDEDNWM 72 (91)
Q Consensus 54 dlmaaL~kEVKsLdeD~W~ 72 (91)
.-+..|+.||++|-.||-+
T Consensus 107 ~~~~~L~~Ev~~L~~DN~k 125 (248)
T PF08172_consen 107 QTISSLRREVESLRADNVK 125 (248)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4567899999999999976
No 11
>COG1250 FadB 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]
Probab=52.74 E-value=8.2 Score=30.87 Aligned_cols=51 Identities=20% Similarity=0.264 Sum_probs=35.7
Q ss_pred eeccceecCC--C-CCcccccccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHhcc
Q 034559 11 ISTTPLVGGG--S-SSNNTATDEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEVKS 65 (91)
Q Consensus 11 vSttav~ggg--g-s~~~~a~ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEVKs 65 (91)
+-+.+|+|+| | +.+.+... -.|| .-..|+.+|+.+.-+..++..|+|.++.
T Consensus 3 i~kv~ViGaG~MG~gIA~~~A~-~G~~---V~l~D~~~~~~~~~~~~i~~~l~k~~~~ 56 (307)
T COG1250 3 IKKVAVIGAGVMGAGIAAVFAL-AGYD---VVLKDISPEALERALAYIEKNLEKLVEK 56 (307)
T ss_pred ccEEEEEcccchhHHHHHHHhh-cCCc---eEEEeCCHHHHHHHHHHHHHHHHHHHhc
Confidence 5577899998 4 44433332 1122 2456777999999999999999999876
No 12
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=52.04 E-value=22 Score=23.74 Aligned_cols=33 Identities=24% Similarity=0.442 Sum_probs=25.0
Q ss_pred hhhhh----HHHHHHHHHHHHHHHHHHhcccccCCccc
Q 034559 40 IQDRK----DEALQVLRSDLMATLNKEVKSLDEDNWMF 73 (91)
Q Consensus 40 ~~~RK----Deam~~LKsdlmaaL~kEVKsLdeD~W~F 73 (91)
+++|. .+.|..||.||++.+.|=|+ +|+++-.+
T Consensus 27 ~~dR~~~~~p~~l~~lk~dIl~VIsKY~~-Id~~~v~i 63 (86)
T PRK00296 27 AHERSSRGEPDYLPQLRKEILEVIAKYVQ-IDPDKVSV 63 (86)
T ss_pred HHHhcCCCCHHHHHHHHHHHHHHHHHhee-cChhhEEE
Confidence 44554 36799999999999999887 66665543
No 13
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=51.57 E-value=19 Score=22.00 Aligned_cols=15 Identities=20% Similarity=0.567 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHh
Q 034559 49 QVLRSDLMATLNKEV 63 (91)
Q Consensus 49 ~~LKsdlmaaL~kEV 63 (91)
..+|.||++..+||+
T Consensus 6 e~~KqEIL~EvrkEl 20 (40)
T PF08776_consen 6 ERLKQEILEEVRKEL 20 (40)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444443
No 14
>PRK13990 cell division topological specificity factor MinE; Provisional
Probab=48.74 E-value=14 Score=25.28 Aligned_cols=24 Identities=29% Similarity=0.515 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHhcccccCC
Q 034559 46 EALQVLRSDLMATLNKEVKSLDEDN 70 (91)
Q Consensus 46 eam~~LKsdlmaaL~kEVKsLdeD~ 70 (91)
+-|..||.||++.+.|=|. +|.|+
T Consensus 43 d~L~~lk~eIl~VI~KYv~-Id~~~ 66 (90)
T PRK13990 43 HLLAELKDEIIEVVKKYVA-LSEEN 66 (90)
T ss_pred HHHHHHHHHHHHHHHHhee-cChhc
Confidence 7899999999999999775 35554
No 15
>PF13434 K_oxygenase: L-lysine 6-monooxygenase (NADPH-requiring); PDB: 3S61_B 3S5W_B.
Probab=48.06 E-value=16 Score=28.55 Aligned_cols=16 Identities=31% Similarity=0.713 Sum_probs=11.4
Q ss_pred cccceeEeeecCcccC
Q 034559 75 GPRSHIHLISTAASFI 90 (91)
Q Consensus 75 ~prSrI~LiSr~g~~~ 90 (91)
+|..+|++|+|..+|.
T Consensus 213 ~~~~~V~~i~R~~~~~ 228 (341)
T PF13434_consen 213 GPEAKVTWISRSPGFF 228 (341)
T ss_dssp -TTEEEEEEESSSS-E
T ss_pred CCCcEEEEEECCCccC
Confidence 5668999999987764
No 16
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=46.29 E-value=23 Score=20.46 Aligned_cols=36 Identities=17% Similarity=0.431 Sum_probs=22.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHH-------hcccccCCccccc
Q 034559 40 IQDRKDEALQVLRSDLMATLNKE-------VKSLDEDNWMFEG 75 (91)
Q Consensus 40 ~~~RKDeam~~LKsdlmaaL~kE-------VKsLdeD~W~F~~ 75 (91)
.++.|.+-+..+..-+++.|.+. +...+.+||.+.|
T Consensus 12 ~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG 54 (60)
T PF01361_consen 12 TAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPENWGIGG 54 (60)
T ss_dssp -HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCCEEETT
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhheEECC
Confidence 45667777777766666666654 3446778887765
No 17
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=45.01 E-value=30 Score=23.85 Aligned_cols=34 Identities=21% Similarity=0.392 Sum_probs=25.4
Q ss_pred hhhhhh---HHHHHHHHHHHHHHHHHHhcccccCCccc
Q 034559 39 SIQDRK---DEALQVLRSDLMATLNKEVKSLDEDNWMF 73 (91)
Q Consensus 39 s~~~RK---Deam~~LKsdlmaaL~kEVKsLdeD~W~F 73 (91)
=++||. .+.|..||.||++.+.|=|. +|+++-.+
T Consensus 29 L~~dR~~~sp~~l~~mk~dIl~VIskYv~-Id~~~v~V 65 (97)
T PRK13988 29 LAHDRADLSPELLEQMRKEILEVVARYVE-IDPEEGEV 65 (97)
T ss_pred HHHHccCCCHHHHHHHHHHHHHHHHHHee-eCccceEE
Confidence 345665 68999999999999999775 46665443
No 18
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=43.23 E-value=43 Score=28.34 Aligned_cols=43 Identities=33% Similarity=0.552 Sum_probs=29.8
Q ss_pred cCCC-CCcc--cccccCCCCCCc-chhhh------hhHHHHHHHHHHHHHHHH
Q 034559 18 GGGS-SSNN--TATDEFHFPSDL-ISIQD------RKDEALQVLRSDLMATLN 60 (91)
Q Consensus 18 gggg-s~~~--~a~ddfhfp~D~-is~~~------RKDeam~~LKsdlmaaL~ 60 (91)
|.|| .++. +|..=.|+|.-+ .+||+ -|+.||.+|++-|-+.-+
T Consensus 234 GaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkvL~ARl~~~~~ 286 (363)
T COG0216 234 GAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAER 286 (363)
T ss_pred CCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHHHHHHHHHHHH
Confidence 4455 3333 677888999875 35663 479999999998765543
No 19
>PF03748 FliL: Flagellar basal body-associated protein FliL; InterPro: IPR005503 This FliL protein controls the rotational direction of the flagella during chemotaxis []. FliL is a cytoplasmic membrane protein associated with the basal body [].; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009425 bacterial-type flagellum basal body
Probab=42.55 E-value=33 Score=21.19 Aligned_cols=20 Identities=25% Similarity=0.348 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHh
Q 034559 44 KDEALQVLRSDLMATLNKEV 63 (91)
Q Consensus 44 KDeam~~LKsdlmaaL~kEV 63 (91)
..+.+..||.+|++++|+.+
T Consensus 64 ~~~g~~~Lk~~l~~~in~~l 83 (99)
T PF03748_consen 64 GPEGKERLKDELKDRINKIL 83 (99)
T ss_pred ChhhHHHHHHHHHHHHHHhh
Confidence 34777899999999999887
No 20
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=42.11 E-value=13 Score=21.52 Aligned_cols=36 Identities=14% Similarity=0.344 Sum_probs=22.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH-------HhcccccCCccccc
Q 034559 40 IQDRKDEALQVLRSDLMATLNK-------EVKSLDEDNWMFEG 75 (91)
Q Consensus 40 ~~~RKDeam~~LKsdlmaaL~k-------EVKsLdeD~W~F~~ 75 (91)
..+.|.+-+..|-.-+.+.|.+ -|...+.++|.|.|
T Consensus 13 t~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG 55 (63)
T TIGR00013 13 TDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPKNNYGIGG 55 (63)
T ss_pred CHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeECC
Confidence 3456666666666666666533 24567888888876
No 21
>cd01278 aprataxin_related aprataxin related: Aprataxin, a HINT family hydrolase is mutated in ataxia oculomotor apraxia syndrome. All the members of this subgroup have the conserved HxHxHxx (where x is a hydrophobic residue) signature motif. Members of this subgroup are predominantly eukaryotic in origin.
Probab=39.52 E-value=66 Score=20.08 Aligned_cols=19 Identities=32% Similarity=0.691 Sum_probs=13.7
Q ss_pred cccCCccc---ccc-----cceeEeee
Q 034559 66 LDEDNWMF---EGP-----RSHIHLIS 84 (91)
Q Consensus 66 LdeD~W~F---~~p-----rSrI~LiS 84 (91)
+.++.+.| .+| +-|+|+||
T Consensus 78 ~~~~~~n~g~h~~p~~~v~H~H~Hvi~ 104 (104)
T cd01278 78 TDPSEFRFGFHAPPFTSVSHLHLHVIA 104 (104)
T ss_pred CCccCeEEEeCCCCCcCeeeEEEEeeC
Confidence 56777766 355 88888886
No 22
>COG0537 Hit Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]
Probab=38.38 E-value=35 Score=23.60 Aligned_cols=33 Identities=24% Similarity=0.281 Sum_probs=20.3
Q ss_pred HHHHHHHHHhcccccCCc-----cccc---ccceeEeeecCc
Q 034559 54 DLMATLNKEVKSLDEDNW-----MFEG---PRSHIHLISTAA 87 (91)
Q Consensus 54 dlmaaL~kEVKsLdeD~W-----~F~~---prSrI~LiSr~g 87 (91)
.+..+|.+..+ -|.=|| .++| |+-|||+|-|..
T Consensus 66 ~ia~al~~~~~-~~g~ni~~N~g~~agq~V~HlH~HvIPr~~ 106 (138)
T COG0537 66 KIAKALKEAFG-ADGYNIGINNGKAAGQEVFHLHIHIIPRYK 106 (138)
T ss_pred HHHHHHHHHhC-CCceEEEEecCcccCcCcceEEEEEcCCcC
Confidence 33444444433 333355 5677 999999999874
No 23
>TIGR00989 3a0801s07tom40 mitochondrial import receptor subunit Tom40. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom40 proteins.
Probab=37.55 E-value=27 Score=26.15 Aligned_cols=26 Identities=35% Similarity=0.576 Sum_probs=22.7
Q ss_pred HHHHHHHh-cccccCCcccccccceeE
Q 034559 56 MATLNKEV-KSLDEDNWMFEGPRSHIH 81 (91)
Q Consensus 56 maaL~kEV-KsLdeD~W~F~~prSrI~ 81 (91)
.|.|.||| |..=-.+++|+|=|--|+
T Consensus 7 ~E~l~re~~rdv~l~~~~FeG~R~d~~ 33 (161)
T TIGR00989 7 IENLAKEVSRDTLLSNYMFTGLRADVT 33 (161)
T ss_pred HHHHHHHHhhhcccCccccccEEEEEe
Confidence 57899999 888889999999987765
No 24
>PF14819 QueF_N: Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term; PDB: 3UXV_C 3RJB_A 3BP1_D 3RZP_B 3RJ4_A 3UXJ_C 3S19_D 3RZQ_B.
Probab=36.74 E-value=13 Score=26.68 Aligned_cols=39 Identities=28% Similarity=0.389 Sum_probs=28.4
Q ss_pred cccccCCCCCCcchhhhhh-----------------HHHHHHHHHHHHHHHHHHhc
Q 034559 26 TATDEFHFPSDLISIQDRK-----------------DEALQVLRSDLMATLNKEVK 64 (91)
Q Consensus 26 ~a~ddfhfp~D~is~~~RK-----------------Deam~~LKsdlmaaL~kEVK 64 (91)
+|+-.|.+|+++.++-+-| +++.+.|..||-++...+|+
T Consensus 52 Vai~~~~vpa~SpniIESKSfKLYLNSfNqtrf~s~~~v~~~i~~DLS~~~g~~V~ 107 (110)
T PF14819_consen 52 VAIAEFTVPADSPNIIESKSFKLYLNSFNQTRFESWEAVQATIERDLSAAAGAPVS 107 (110)
T ss_dssp EEEEEEEEETTSSEEE-HHHHHHHHHTTTT-B-S-HHHHHHHHHHHHHHHHTS--E
T ss_pred EEEEEEEecCCCCcceeechhhhhhccccccccCCHHHHHHHHHHHHHHHcCCceE
Confidence 5666788888887765544 78888999999999888775
No 25
>KOG1268 consensus Glucosamine 6-phosphate synthetases, contain amidotransferase and phosphosugar isomerase domains [Cell wall/membrane/envelope biogenesis]
Probab=36.66 E-value=35 Score=30.97 Aligned_cols=22 Identities=27% Similarity=0.468 Sum_probs=18.9
Q ss_pred CCCCCcchhhhhhHHHHHHHHH
Q 034559 32 HFPSDLISIQDRKDEALQVLRS 53 (91)
Q Consensus 32 hfp~D~is~~~RKDeam~~LKs 53 (91)
.+-.|.||.|+|+.|-|+.||.
T Consensus 480 ~~s~d~is~~~RR~eIi~gL~~ 501 (670)
T KOG1268|consen 480 WMSEDRVSKQERRKEIIDGLKD 501 (670)
T ss_pred HhccchhhHHHHHHHHHHHHHH
Confidence 3557889999999999999885
No 26
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=36.57 E-value=37 Score=24.91 Aligned_cols=29 Identities=24% Similarity=0.511 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHH--HHhccc-ccCCcccc
Q 034559 46 EALQVLRSDLMATLN--KEVKSL-DEDNWMFE 74 (91)
Q Consensus 46 eam~~LKsdlmaaL~--kEVKsL-deD~W~F~ 74 (91)
+.+++.-+++.++=+ .|||+| |+.+|.|-
T Consensus 36 ~~i~~~~~~i~~~~~r~~eLk~lI~kk~W~~v 67 (142)
T TIGR03042 36 AQIQRQAEGIEAAKDRLPELASLVAKEDWVFT 67 (142)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHhhcchHHH
Confidence 344444444443333 256654 77899885
No 27
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=36.53 E-value=30 Score=25.33 Aligned_cols=36 Identities=17% Similarity=0.431 Sum_probs=31.8
Q ss_pred ccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHhc
Q 034559 29 DEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEVK 64 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEVK 64 (91)
...+||.|.+..+..+..+-..+|+.++..|++||-
T Consensus 166 ~~~~~~~~~~t~~~~~~~~~e~ire~~~~~~~~e~p 201 (270)
T TIGR00436 166 GPFRYPEDYVTDQPDRFKISEIIREKIIRYTKEEIP 201 (270)
T ss_pred CCCCCCCcccCCCCHHHHHHHHHHHHHHHhcccccC
Confidence 457899999998888888999999999999999974
No 28
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=35.84 E-value=21 Score=20.14 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=16.0
Q ss_pred HHHHHhcccccCCcccccccceeEeeecCc-cc
Q 034559 58 TLNKEVKSLDEDNWMFEGPRSHIHLISTAA-SF 89 (91)
Q Consensus 58 aL~kEVKsLdeD~W~F~~prSrI~LiSr~g-~~ 89 (91)
++.+.++.|.+.. +.+.|.|| ||
T Consensus 31 Ti~~~i~~L~~~~---------~~I~~~~~~GY 54 (55)
T PF08279_consen 31 TIRRDIKELREWG---------IPIESKRGKGY 54 (55)
T ss_dssp HHHHHHHHHHHTT----------EEEEETTTEE
T ss_pred HHHHHHHHHHHCC---------CeEEeeCCCCc
Confidence 4567777776544 78888888 77
No 29
>PF11387 DUF2795: Protein of unknown function (DUF2795); InterPro: IPR021527 This family of proteins has no known function.
Probab=34.80 E-value=97 Score=18.09 Aligned_cols=25 Identities=32% Similarity=0.642 Sum_probs=15.4
Q ss_pred ccCCCCCCcchhhhhhHHHHHHHHH-----HHHHHHH
Q 034559 29 DEFHFPSDLISIQDRKDEALQVLRS-----DLMATLN 60 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~~LKs-----dlmaaL~ 60 (91)
.+..||++ |++-+...+. +|+++|+
T Consensus 2 ~~~dyPa~-------k~~Lv~~A~~~gA~~~vl~~L~ 31 (44)
T PF11387_consen 2 KGVDYPAD-------KDELVRHARRNGAPDDVLDALE 31 (44)
T ss_pred CCCCCCCC-------HHHHHHHHHHcCCCHHHHHHHH
Confidence 45678876 5566665554 5666654
No 30
>PF14772 NYD-SP28: Sperm tail
Probab=34.19 E-value=62 Score=21.08 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=14.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHH
Q 034559 40 IQDRKDEALQVLRSDLMATLN 60 (91)
Q Consensus 40 ~~~RKDeam~~LKsdlmaaL~ 60 (91)
+.+|||..+..|..||..+=+
T Consensus 70 ii~~Kd~lI~~L~~eL~~~de 90 (104)
T PF14772_consen 70 IIDRKDALIKELQQELKEADE 90 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 457888888888877765533
No 31
>COG1159 Era GTPase [General function prediction only]
Probab=33.58 E-value=29 Score=28.28 Aligned_cols=54 Identities=19% Similarity=0.317 Sum_probs=42.0
Q ss_pred ccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHhc---ccccCCcccc-cccceeEe
Q 034559 29 DEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEVK---SLDEDNWMFE-GPRSHIHL 82 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEVK---sLdeD~W~F~-~prSrI~L 82 (91)
..++||.|.|+.+..+--|...+|+.+|.-|..|+= ...=|.|++. .--=+||.
T Consensus 174 g~~~yp~d~itD~~~rf~~aEiiREk~~~~l~eElPhsv~VeIe~~~~~~~~~~~I~a 231 (298)
T COG1159 174 GPWYYPEDQITDRPERFLAAEIIREKLLLLLREELPHSVAVEIEEFEEREKGLLKIHA 231 (298)
T ss_pred CCCcCChhhccCChHHHHHHHHHHHHHHHhcccccCceEEEEEEEEEecCCCeEEEEE
Confidence 568999999999999999999999999999999973 3445667664 33334543
No 32
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=32.71 E-value=46 Score=23.12 Aligned_cols=34 Identities=29% Similarity=0.479 Sum_probs=25.2
Q ss_pred cchhhhhh----HHHHHHHHHHHHHHHHHHhcccccCCc
Q 034559 37 LISIQDRK----DEALQVLRSDLMATLNKEVKSLDEDNW 71 (91)
Q Consensus 37 ~is~~~RK----Deam~~LKsdlmaaL~kEVKsLdeD~W 71 (91)
+|=+++|. -+-|.+||.||++.+.|=|+. |.|.-
T Consensus 24 iilA~eR~~~~~pd~l~~Lr~eIl~VI~KYV~i-d~d~v 61 (88)
T COG0851 24 LILAHERAAGLQPDYLEQLRKEILEVISKYVQI-DPDKV 61 (88)
T ss_pred HhhhhhhhcCCCcchHHHHHHHHHHHHHHHhee-CcccE
Confidence 46677884 246789999999999999984 44433
No 33
>PRK00089 era GTPase Era; Reviewed
Probab=32.41 E-value=37 Score=24.80 Aligned_cols=36 Identities=22% Similarity=0.341 Sum_probs=31.1
Q ss_pred ccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHhc
Q 034559 29 DEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEVK 64 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEVK 64 (91)
....||.|.+..+..+.-+-..+++.++..|++|+-
T Consensus 173 ~~~~y~~~~~td~~~r~~~~EiiRe~~~~~l~~e~p 208 (292)
T PRK00089 173 GPPYYPEDQITDRPERFLAAEIIREKLLRLLGDELP 208 (292)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHhhCCccCC
Confidence 345799999998888888888899999999999974
No 34
>cd01276 PKCI_related Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a hydrophobic residue) that is a signature for this family. No enzymatic activity has been reported however, for PKCI and its related members.
Probab=32.07 E-value=87 Score=19.38 Aligned_cols=10 Identities=30% Similarity=0.521 Sum_probs=7.9
Q ss_pred ccceeEeeec
Q 034559 76 PRSHIHLIST 85 (91)
Q Consensus 76 prSrI~LiSr 85 (91)
|+-+||+|+|
T Consensus 95 ~H~HiHii~~ 104 (104)
T cd01276 95 FHLHLHLLGG 104 (104)
T ss_pred eEEEEEEeCC
Confidence 5778999875
No 35
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=31.35 E-value=74 Score=18.16 Aligned_cols=33 Identities=24% Similarity=0.562 Sum_probs=17.9
Q ss_pred hhHHHHHHHHHHHHHHHHHH-----------hcccccCCccccc
Q 034559 43 RKDEALQVLRSDLMATLNKE-----------VKSLDEDNWMFEG 75 (91)
Q Consensus 43 RKDeam~~LKsdlmaaL~kE-----------VKsLdeD~W~F~~ 75 (91)
|-+|.-+.|=..|.++|.+. +...+.++|.|.|
T Consensus 12 rs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG 55 (61)
T PRK02220 12 RTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGG 55 (61)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECC
Confidence 43444444444444444443 2346778888876
No 36
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=30.38 E-value=72 Score=22.17 Aligned_cols=24 Identities=21% Similarity=0.444 Sum_probs=21.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhcc
Q 034559 42 DRKDEALQVLRSDLMATLNKEVKS 65 (91)
Q Consensus 42 ~RKDeam~~LKsdlmaaL~kEVKs 65 (91)
.|++..-.+++.+|.+.|++|||.
T Consensus 5 ~R~~rv~e~i~~~l~~il~~eikD 28 (118)
T COG0858 5 TRAKRVAEQIQKELAEILQREIKD 28 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccC
Confidence 388888889999999999999985
No 37
>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []. At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....
Probab=30.03 E-value=83 Score=21.22 Aligned_cols=39 Identities=21% Similarity=0.416 Sum_probs=26.0
Q ss_pred cccccCCCCCCcc-------hhhhhhHHHHHHHHHHHHHHHHHHhc
Q 034559 26 TATDEFHFPSDLI-------SIQDRKDEALQVLRSDLMATLNKEVK 64 (91)
Q Consensus 26 ~a~ddfhfp~D~i-------s~~~RKDeam~~LKsdlmaaL~kEVK 64 (91)
++..=.|.|..++ +-..=|+.||..|+.-|+++..++.+
T Consensus 34 s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~~~~~~ 79 (113)
T PF00472_consen 34 SKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAYREKRR 79 (113)
T ss_dssp EEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444456675543 33445899999999999999854443
No 38
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=29.10 E-value=55 Score=18.30 Aligned_cols=35 Identities=17% Similarity=0.466 Sum_probs=20.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH-------hcccccCCccccc
Q 034559 41 QDRKDEALQVLRSDLMATLNKE-------VKSLDEDNWMFEG 75 (91)
Q Consensus 41 ~~RKDeam~~LKsdlmaaL~kE-------VKsLdeD~W~F~~ 75 (91)
.+.|.+-+..|-.-+.+.+.+- +...+.++|.|.|
T Consensus 13 ~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg 54 (58)
T cd00491 13 DEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGG 54 (58)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECC
Confidence 5566666666655555554222 3456788888876
No 39
>PF03776 MinE: Septum formation topological specificity factor MinE; InterPro: IPR005527 Cytokinesis needs to be regulated spatially in order to ensure that it occurs between the daughter genomes. In prokaryotes such as Escherichia coli, cytokinesis is initiated by FtsZ, a tubulin-like protein that assembles into a ring structure at the cell centre called the Z ring. A fundamental problem in prokaryotic cell biology is to understand how the midcell division site is identified. Two major negative regulatory systems are known to be involved in preventing Z-ring assembly at all sites except the midcell. One of these systems, called nucleoid occlusion, blocks Z-ring assembly in the area occupied by an unsegregated nucleoid until a critical stage in chromosome replication or segregation is reached. The other system consists of three proteins, MinC, MinD and MinE, which prevent assembly of Z rings in regions of the cell not covered by the nucleoid, such as the cell poles. MinC is an inhibitor of FtsZ polymerisation, resulting in the inhibition of Z ring assembly in the cell; MinD greatly enhances the inhibitory effects of MinC in vivo; and MinE antagonizes the effects of MinC and MinD []. MinE is a small bifunctional protein. The amino terminus of MinE is required to interact with MinD, while the carboxyl terminus is required for `topological specificity' - that is, the ability of MinE to antagonise MinCD inhibition of Z rings at the midcell position but not at the poles.; GO: 0032955 regulation of barrier septum formation, 0051301 cell division; PDB: 2KXO_A 3MCD_B 3KU7_A 3R9J_C 3R9I_E 1EV0_B.
Probab=28.66 E-value=64 Score=20.39 Aligned_cols=25 Identities=24% Similarity=0.561 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHhcccccCCc
Q 034559 46 EALQVLRSDLMATLNKEVKSLDEDNW 71 (91)
Q Consensus 46 eam~~LKsdlmaaL~kEVKsLdeD~W 71 (91)
+.|..||.||++.+.|=|+ .|+++-
T Consensus 25 ~~l~~lk~eil~viskYv~-i~~~~v 49 (70)
T PF03776_consen 25 DYLEQLKKEILEVISKYVE-IDEEDV 49 (70)
T ss_dssp SSHHHHHHHHHHHHHHHS----CCCE
T ss_pred HHHHHHHHHHHHHHHhhee-cCcccE
Confidence 4688999999999999773 444443
No 40
>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2.5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....
Probab=28.05 E-value=44 Score=24.95 Aligned_cols=59 Identities=20% Similarity=0.395 Sum_probs=28.2
Q ss_pred eccceecCCCCCcccccccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHhcccccCCcccccccceeEe
Q 034559 12 STTPLVGGGSSSNNTATDEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEVKSLDEDNWMFEGPRSHIHL 82 (91)
Q Consensus 12 Sttav~ggggs~~~~a~ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEVKsLdeD~W~F~~prSrI~L 82 (91)
...-|+|||++..+-.+- .|.|...|.+-|--.+++...|. -....... |..||-+|+.
T Consensus 78 ~~VLiiGgG~G~~~~ell-~~~~~~~i~~VEiD~~Vv~~a~~--------~f~~~~~~---~~d~r~~i~~ 136 (246)
T PF01564_consen 78 KRVLIIGGGDGGTARELL-KHPPVESITVVEIDPEVVELARK--------YFPEFSEG---LDDPRVRIII 136 (246)
T ss_dssp -EEEEEESTTSHHHHHHT-TSTT-SEEEEEES-HHHHHHHHH--------HTHHHHTT---GGSTTEEEEE
T ss_pred CceEEEcCCChhhhhhhh-hcCCcceEEEEecChHHHHHHHH--------hchhhccc---cCCCceEEEE
Confidence 345678887654443332 23334556665544444444443 22222222 7778777753
No 41
>PF03726 PNPase: Polyribonucleotide nucleotidyltransferase, RNA binding domain; InterPro: IPR015848 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents an RNA-binding phosphorolytic (PH) domain found in bacterial and organelle PNPases, but not in exosomes. It usually occurs in combination with PH domain 1 (IPR001247 from INTERPRO) and PH domain 2 (IPR015847 from INTERPRO), both of which are found in PNPases and exosomes. The core structure of the RNA-binding PH domain consists of a DNA/RNA-binding 3-helical bundle. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0000175 3'-5'-exoribonuclease activity, 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 3U1K_B 3GCM_A 3GLL_A 3GME_A 4AM3_B 4AID_C 4AIM_A 1WHU_A ....
Probab=27.37 E-value=79 Score=19.64 Aligned_cols=19 Identities=26% Similarity=0.679 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 034559 44 KDEALQVLRSDLMATLNKE 62 (91)
Q Consensus 44 KDeam~~LKsdlmaaL~kE 62 (91)
+++++..||.++++.|.-+
T Consensus 26 R~~a~~~i~~~~~~~~~~~ 44 (83)
T PF03726_consen 26 REEALDAIKEEVIEELEEE 44 (83)
T ss_dssp HHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4678999999999999844
No 42
>PRK15494 era GTPase Era; Provisional
Probab=26.92 E-value=48 Score=25.74 Aligned_cols=35 Identities=23% Similarity=0.286 Sum_probs=32.2
Q ss_pred ccCCCCCCcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 034559 29 DEFHFPSDLISIQDRKDEALQVLRSDLMATLNKEV 63 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~~LKsdlmaaL~kEV 63 (91)
....||.|.+.-+-.+.-+-...|+-++..|.+||
T Consensus 218 ~~~~~~~~~~td~~~~~~~~eiiRe~~~~~~~~Ei 252 (339)
T PRK15494 218 SPWLYAEDDITDLPMRFIAAEITREQLFLNLQKEL 252 (339)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHhhCCccc
Confidence 56889999999998899999999999999999997
No 43
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=26.64 E-value=1.2e+02 Score=26.34 Aligned_cols=46 Identities=26% Similarity=0.440 Sum_probs=33.2
Q ss_pred ceecCCCCCcccccccCCCCCCcchhhhhhHHHHHHHHH----HHHHHHHHHhccc
Q 034559 15 PLVGGGSSSNNTATDEFHFPSDLISIQDRKDEALQVLRS----DLMATLNKEVKSL 66 (91)
Q Consensus 15 av~ggggs~~~~a~ddfhfp~D~is~~~RKDeam~~LKs----dlmaaL~kEVKsL 66 (91)
.+++||||.- |..|.+=|...|-+.=....||+ --|.+.+|-+-..
T Consensus 117 ~LISGGGSaL------~e~P~eGitL~d~~avn~~LL~sGA~I~emNtVRkhLS~V 166 (422)
T COG2379 117 VLISGGGSAL------LELPAEGITLEDLIAVNRALLKSGAPISEMNTVRKHLSRV 166 (422)
T ss_pred EEEeCCchhh------ccCCccCCCHHHHHHHHHHHHHcCCChHHHHHHHHHHhhc
Confidence 3566776544 67889999988888777777887 5577788766443
No 44
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=26.47 E-value=90 Score=22.16 Aligned_cols=32 Identities=6% Similarity=0.124 Sum_probs=22.8
Q ss_pred hhhhhhHHHHHHHHHHHHH-HHHHHhcccccCC
Q 034559 39 SIQDRKDEALQVLRSDLMA-TLNKEVKSLDEDN 70 (91)
Q Consensus 39 s~~~RKDeam~~LKsdlma-aL~kEVKsLdeD~ 70 (91)
.++..|..|++.||.++.. .+++.+.+||+|.
T Consensus 126 ~ie~Ek~~a~~elk~eii~~~~~~~~~~l~~~~ 158 (167)
T PRK08475 126 LMEFEVRKMEREVVEEVLNELFESKKVSLNQQE 158 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCHHH
Confidence 3556677888888887764 4566778888764
No 45
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=25.19 E-value=1.3e+02 Score=18.73 Aligned_cols=17 Identities=18% Similarity=0.229 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhccc
Q 034559 50 VLRSDLMATLNKEVKSL 66 (91)
Q Consensus 50 ~LKsdlmaaL~kEVKsL 66 (91)
.+|+++|.+|.+.++..
T Consensus 14 ~~k~~l~~~i~~~~~~~ 30 (80)
T PF13744_consen 14 EAKAQLMAAIRELREER 30 (80)
T ss_dssp HHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHc
Confidence 39999999999887753
No 46
>PRK00961 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=25.12 E-value=69 Score=27.07 Aligned_cols=38 Identities=18% Similarity=0.359 Sum_probs=29.7
Q ss_pred HHHHHHHHH----HHHHHHHHHhcccccCCcccccccceeEeee
Q 034559 45 DEALQVLRS----DLMATLNKEVKSLDEDNWMFEGPRSHIHLIS 84 (91)
Q Consensus 45 Deam~~LKs----dlmaaL~kEVKsLdeD~W~F~~prSrI~LiS 84 (91)
+|+|.+-+. ++|-+++..||.+-++-=| -|.-+||.+.
T Consensus 82 ~~v~~ah~~g~~e~vmp~ir~~v~~~a~~~pk--ppk~~ihf~~ 123 (342)
T PRK00961 82 KEVMEAHLAGNPEKVMPKIREKVKAKAKELPK--PPKGCIHFVH 123 (342)
T ss_pred HHHHHHHhcCCHHHhhHHHHHHHHHHHhhCCC--CCccceeecC
Confidence 577776654 8999999999988877654 5788888875
No 47
>PF10637 Ofd1_CTDD: Oxoglutarate and iron-dependent oxygenase degradation C-term; InterPro: IPR019601 This entry represents the C-terminal degradation domain of oxoglutarate and iron-dependent oxygenase (Ofd1), the domain being conserved from yeasts to humans. Ofd1 is a prolyl 4-hydroxylase-like 2-oxoglutarate-Fe(II) dioxygenase that accelerates the degradation of Sre1N (the N-terminal transcription factor domain of Sre1) in the presence of oxygen []. Yeast Sre1 is the orthologue of mammalian sterol regulatory element binding protein (SREBP), and it responds to changes in oxygen-dependent sterol synthesis as an indirect measure of oxygen availability. However, unlike the prolyl 4-hydroxylases that regulate mammalian hypoxia-inducible factor, Ofd1 uses multiple domains to regulate Sre1N degradation by oxygen; the Ofd1 N-terminal dioxygenase domain is required for oxygen sensing and this Ofd1 C-terminal domain accelerates Sre1N degradation in yeasts []. ; GO: 0005506 iron ion binding, 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0031418 L-ascorbic acid binding, 0055114 oxidation-reduction process; PDB: 3KT4_A 3KT1_A 3KT7_A 3MGU_A.
Probab=24.58 E-value=26 Score=27.56 Aligned_cols=29 Identities=21% Similarity=0.518 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHhcccccC-------------Ccccccccce
Q 034559 51 LRSDLMATLNKEVKSLDED-------------NWMFEGPRSH 79 (91)
Q Consensus 51 LKsdlmaaL~kEVKsLdeD-------------~W~F~~prSr 79 (91)
||.++-+.|.+.+++.|.. +|+-.||-.+
T Consensus 39 L~~~~~~~L~~~l~~~e~~~~~~p~~~~~~~~~W~~~gPphK 80 (266)
T PF10637_consen 39 LKPEKAEQLKEALESQEIEDLSLPQSSKEVEKPWKVAGPPHK 80 (266)
T ss_dssp B-HHHHHHHHHHHHHHHHH-S----SGGG--TT-EE-B-TTT
T ss_pred cCHHHHHHHHHHHHhhccccccCCCcccccCCCceECCCChh
Confidence 5557777788877777765 7999999543
No 48
>PRK03195 hypothetical protein; Provisional
Probab=24.41 E-value=72 Score=24.05 Aligned_cols=29 Identities=21% Similarity=0.373 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHhcccccCCcccccc
Q 034559 48 LQVLRSDLMATLNKEVKSLDEDNWMFEGP 76 (91)
Q Consensus 48 m~~LKsdlmaaL~kEVKsLdeD~W~F~~p 76 (91)
+.-+|.+|++.||+++-.--=..-+|.||
T Consensus 136 L~~~k~~Ii~rLN~~lG~~vV~~I~i~GP 164 (186)
T PRK03195 136 LRMMQAQLLAKIAAAVGDGVVTSLKITGP 164 (186)
T ss_pred HHhhHHHHHHHHHHHhCccceeEEEEeCC
Confidence 45788999999999876544444556655
No 49
>PRK10687 purine nucleoside phosphoramidase; Provisional
Probab=23.98 E-value=1.4e+02 Score=20.15 Aligned_cols=23 Identities=26% Similarity=0.534 Sum_probs=16.9
Q ss_pred cccccCCcccc-------c---ccceeEeeecC
Q 034559 64 KSLDEDNWMFE-------G---PRSHIHLISTA 86 (91)
Q Consensus 64 KsLdeD~W~F~-------~---prSrI~LiSr~ 86 (91)
+.+..|.+.|- | |+-|||+|.|+
T Consensus 76 ~~~~~~g~~l~~n~G~~agQ~V~HlHiHvI~g~ 108 (119)
T PRK10687 76 EGIAEDGYRLIMNTNRHGGQEVYHIHMHLLGGR 108 (119)
T ss_pred hCCCCCceEEEEeCCCcCCcccCEEEEEECCCc
Confidence 34667777762 3 78999999886
No 50
>PRK13817 ribosome-binding factor A; Provisional
Probab=23.12 E-value=1.1e+02 Score=21.00 Aligned_cols=24 Identities=25% Similarity=0.483 Sum_probs=20.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhcc
Q 034559 42 DRKDEALQVLRSDLMATLNKEVKS 65 (91)
Q Consensus 42 ~RKDeam~~LKsdlmaaL~kEVKs 65 (91)
.|.+..=..||.+|-+.|++|++.
T Consensus 3 ~R~~Rv~~~I~reis~il~~ei~d 26 (119)
T PRK13817 3 QRQQRVADLIHQQLAELLKKEVRD 26 (119)
T ss_pred hHHHHHHHHHHHHHHHHHHHhccC
Confidence 577778889999999999999875
No 51
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=23.03 E-value=1.4e+02 Score=19.47 Aligned_cols=31 Identities=29% Similarity=0.564 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHH------HHHHHHHHHhcccccCCccc
Q 034559 42 DRKDEALQVLRS------DLMATLNKEVKSLDEDNWMF 73 (91)
Q Consensus 42 ~RKDeam~~LKs------dlmaaL~kEVKsLdeD~W~F 73 (91)
.|=|.|+..+|. .+...|++=+|--|.+ |-|
T Consensus 9 ~R~daA~dam~~lG~~~~~v~~vl~~LL~lY~~n-W~l 45 (65)
T PF10440_consen 9 ERIDAALDAMRQLGFSKKQVRPVLKNLLKLYDGN-WEL 45 (65)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCC-chh
Confidence 566777776665 7888888888877766 977
No 52
>TIGR01723 hmd_TIGR 5,10-methenyltetrahydromethanopterin hydrogenase. This model represents a clade of authenticated coenzyme N(5),N(10)-methenyltetrahydromethanopterin reductases. This enzyme does not use F420. This enzyme acts in methanogenesis and as such is restricted to methanogenic archaeal species. This clade is one of two clades in pfam model pfam03201.
Probab=22.92 E-value=86 Score=26.47 Aligned_cols=38 Identities=16% Similarity=0.316 Sum_probs=29.7
Q ss_pred HHHHHHHHH----HHHHHHHHHhcccccCCcccccccceeEeee
Q 034559 45 DEALQVLRS----DLMATLNKEVKSLDEDNWMFEGPRSHIHLIS 84 (91)
Q Consensus 45 Deam~~LKs----dlmaaL~kEVKsLdeD~W~F~~prSrI~LiS 84 (91)
+|+|.+-++ ++|-+++..||.+-++-=| -|.-.||++.
T Consensus 80 ~~v~~ah~~g~~e~vmp~ir~~v~~~a~~~pk--ppk~~ihf~~ 121 (340)
T TIGR01723 80 KEVIEAHLEGNPESIMPKIREVVNAKAKELPK--PPKGAIHFVH 121 (340)
T ss_pred HHHHHHHhcCCHHHhhHHHHHHHHHHHhhCCC--CCcceeeecC
Confidence 567776554 8999999999988877654 5788899875
No 53
>TIGR03232 benzo_1_2_benB benzoate 1,2-dioxygenase, small subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family should all act on benzoate, but several have additional known activities on various benozate analogs. Some members actually may be named more suitably according to such alternate an activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).
Probab=22.74 E-value=71 Score=22.62 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=20.9
Q ss_pred HHHHHhccc-ccCCccccccccee-Eeeec
Q 034559 58 TLNKEVKSL-DEDNWMFEGPRSHI-HLIST 85 (91)
Q Consensus 58 aL~kEVKsL-deD~W~F~~prSrI-~LiSr 85 (91)
-|..-|+.| ..-+|. +.|.||. |+||.
T Consensus 59 ~L~~RV~rL~t~~a~s-e~P~srtrh~vsn 87 (155)
T TIGR03232 59 GLEDRVFRIKTERSSA-TVPDTRTSHNISN 87 (155)
T ss_pred HHHHHHHHHhcCCcee-cCCCCeeeEEEcC
Confidence 355667777 677888 6899998 99985
No 54
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=22.71 E-value=48 Score=22.87 Aligned_cols=20 Identities=45% Similarity=0.677 Sum_probs=6.1
Q ss_pred HHHHHHHHhcccccCCcccc
Q 034559 55 LMATLNKEVKSLDEDNWMFE 74 (91)
Q Consensus 55 lmaaL~kEVKsLdeD~W~F~ 74 (91)
|-..|-||-||.|...|-|.
T Consensus 59 LQTlLAkErksyd~qrwgf~ 78 (79)
T PF09036_consen 59 LQTLLAKERKSYDRQRWGFR 78 (79)
T ss_dssp HHHHHHHT------------
T ss_pred HHHHHHHhhhcchhhhcccC
Confidence 45678899999999999984
No 55
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=22.56 E-value=67 Score=18.20 Aligned_cols=18 Identities=22% Similarity=0.593 Sum_probs=15.8
Q ss_pred HHHHHHHHHhcccccCCcc
Q 034559 54 DLMATLNKEVKSLDEDNWM 72 (91)
Q Consensus 54 dlmaaL~kEVKsLdeD~W~ 72 (91)
+++..|+..+..| .+.|.
T Consensus 25 ~~~~~l~~~~~~l-~~~W~ 42 (86)
T PF06013_consen 25 SQLQQLESSIDSL-QASWQ 42 (86)
T ss_dssp HHHHHHHHHHHHH-GGGBT
T ss_pred HHHHHHHHHHHHH-hhhCC
Confidence 5678899999999 89997
No 56
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=22.41 E-value=2.1e+02 Score=20.61 Aligned_cols=37 Identities=11% Similarity=0.283 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHhcccccCCcccccccceeEeeecC
Q 034559 48 LQVLRSDLMATLNKEVKSLDEDNWMFEGPRSHIHLISTA 86 (91)
Q Consensus 48 m~~LKsdlmaaL~kEVKsLdeD~W~F~~prSrI~LiSr~ 86 (91)
...++.++++.|++.--.=++..|.|. --||.++.+.
T Consensus 217 ~~~~~~~~~~~l~~~~~~~~~g~~~~~--~~~~~~~a~~ 253 (255)
T PRK14103 217 WEQFRAELIPLLREAYPPRADGTTFFP--FRRVFVVARV 253 (255)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCcEEee--eccEEEEEEe
Confidence 344555555555443211145567775 5567666544
No 57
>PF07852 DUF1642: Protein of unknown function (DUF1642); InterPro: IPR012865 This entry is represented by Bacteriophage r1t, Orf19. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.80 E-value=48 Score=22.65 Aligned_cols=19 Identities=37% Similarity=0.667 Sum_probs=16.0
Q ss_pred HHHHHHHhcccccCCcccc
Q 034559 56 MATLNKEVKSLDEDNWMFE 74 (91)
Q Consensus 56 maaL~kEVKsLdeD~W~F~ 74 (91)
..-=++|+|+.|+-.|-|+
T Consensus 116 ~~fTe~EIk~i~~~~W~f~ 134 (138)
T PF07852_consen 116 YKFTEKEIKKIDEFYWVFA 134 (138)
T ss_pred hhhhHHHHHhCcCCCceee
Confidence 4445799999999999997
No 58
>PF13660 DUF4147: Domain of unknown function (DUF4147); PDB: 1X3L_A 2B8N_A.
Probab=21.61 E-value=79 Score=24.48 Aligned_cols=61 Identities=28% Similarity=0.457 Sum_probs=30.6
Q ss_pred eecCCCCCcccccccCCCCCCcchhhhhhHHHHHHHHH-----HHHHHHHHHhcccccCCc-ccccccceeEee
Q 034559 16 LVGGGSSSNNTATDEFHFPSDLISIQDRKDEALQVLRS-----DLMATLNKEVKSLDEDNW-MFEGPRSHIHLI 83 (91)
Q Consensus 16 v~ggggs~~~~a~ddfhfp~D~is~~~RKDeam~~LKs-----dlmaaL~kEVKsLdeD~W-~F~~prSrI~Li 83 (91)
+++||||.- |..|.|.|+..| |-+..+.|-. +=|.+++|-+-.+-...- ++..|.-.+.||
T Consensus 122 LiSGGgSAL------l~~P~~gisLed-~~~~~~~Ll~sGa~I~EiN~VRkhLS~vKGG~La~~~~~a~v~sLi 188 (238)
T PF13660_consen 122 LISGGGSAL------LELPADGISLED-KQELTKLLLRSGADIHEINTVRKHLSRVKGGRLARAAAPARVVSLI 188 (238)
T ss_dssp EE-TTHHHH------S--B-TT--HHH-HHHHHHHHHHCT--HHHHHHHHHTTBSSTTTHHHHCHTTSEEEEEE
T ss_pred EecCChHHh------hcCCCCCCCHHH-HHHHHHHHHHCCCCHHHHHHHHHHHhcCCchHHHHHhcCCeEEEEE
Confidence 456775543 456788887654 5555555544 557777777655433321 344455555554
No 59
>PF05990 DUF900: Alpha/beta hydrolase of unknown function (DUF900); InterPro: IPR010297 This domain is associated with proteins of unknown function, which are hydrolase-like.
Probab=21.60 E-value=1.6e+02 Score=21.67 Aligned_cols=15 Identities=13% Similarity=0.242 Sum_probs=12.1
Q ss_pred cccceeEeeecC-ccc
Q 034559 75 GPRSHIHLISTA-ASF 89 (91)
Q Consensus 75 ~prSrI~LiSr~-g~~ 89 (91)
.+..+||||.+. |++
T Consensus 90 ~~~~~I~ilaHSMG~r 105 (233)
T PF05990_consen 90 PGIKRIHILAHSMGNR 105 (233)
T ss_pred cCCceEEEEEeCchHH
Confidence 678899999987 554
No 60
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=21.57 E-value=1.2e+02 Score=22.22 Aligned_cols=27 Identities=19% Similarity=0.257 Sum_probs=18.1
Q ss_pred CCcchhhhhhHHHHHHHHHHHHHHHHH
Q 034559 35 SDLISIQDRKDEALQVLRSDLMATLNK 61 (91)
Q Consensus 35 ~D~is~~~RKDeam~~LKsdlmaaL~k 61 (91)
.+-|..+++|-+.+.....+++.+|.+
T Consensus 93 ~eAie~l~k~~~~l~~~~~~l~~~l~~ 119 (145)
T COG1730 93 DEAIEFLKKRIEELEKAIEKLQQALAE 119 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777777777777666666666654
No 61
>PF07218 RAP1: Rhoptry-associated protein 1 (RAP-1); InterPro: IPR009864 This family consists of several rhoptry-associated protein 1 (RAP-1) sequences which appear to be specific to Plasmodium falciparum [].
Probab=21.51 E-value=1.4e+02 Score=27.65 Aligned_cols=29 Identities=21% Similarity=0.493 Sum_probs=21.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhcccccC
Q 034559 41 QDRKDEALQVLRSDLMATLNKEVKSLDED 69 (91)
Q Consensus 41 ~~RKDeam~~LKsdlmaaL~kEVKsLdeD 69 (91)
.++-.+-|+.||.|-...-++|.|.|||.
T Consensus 222 ~~~l~kemdilkney~kvk~~e~~~~dee 250 (782)
T PF07218_consen 222 MEKLTKEMDILKNEYIKVKEEEEKELDEE 250 (782)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHhHHhHH
Confidence 34456678888888777777777777764
No 62
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=21.37 E-value=1.5e+02 Score=23.26 Aligned_cols=37 Identities=30% Similarity=0.520 Sum_probs=26.5
Q ss_pred ccCCCCCCcchhhhhhHHHHH----HHHHHHHHH-----HHHHhcc
Q 034559 29 DEFHFPSDLISIQDRKDEALQ----VLRSDLMAT-----LNKEVKS 65 (91)
Q Consensus 29 ddfhfp~D~is~~~RKDeam~----~LKsdlmaa-----L~kEVKs 65 (91)
=+|+||..+.+-+-||-..+. ..++||..+ |+.++|.
T Consensus 155 m~fdyP~~l~~~LR~K~Dvar~~lekt~~dl~~a~~~r~le~~l~~ 200 (204)
T COG2178 155 MEFDYPKALVPGLRQKQDVARSLLEKTKSDLFRAKQNRQLEEELKG 200 (204)
T ss_pred HhcCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 368999999999999988876 445666554 4445554
No 63
>PF03250 Tropomodulin: Tropomodulin; InterPro: IPR004934 Actin filaments have an intrinsic polarity, each with a fast-growing (barbed) end and a slow-growing (pointed) end. To regulate the dynamics at these ends, capping proteins have evolved that specifically bind to either the barbed or the pointed ends of the filament, where they block the association and dissociation of monomers. Pointed ends, for which actin monomers have significantly lower association and dissociation rate-constants than for barbed, are capped by either the Arp2/3 complex or tropomodulins []. Tropomodulin is a novel tropomyosin regulatory protein that binds to the end of erythrocyte tropomyosin and blocks head-to-tail association of tropomyosin along actin filaments []. Limited proteolysis shows this protein is composed of two domains. The unstructured tropomyosin-binding region at the N terminus has an actin pointed-end-capping activity that is dramatically up-regulated by tropomyosin coating of the actin filament[]. The second region is found near the C terminus. This tropomyosin-independent capping-domain caps pure actin. ; GO: 0005523 tropomyosin binding, 0005856 cytoskeleton
Probab=21.35 E-value=79 Score=23.67 Aligned_cols=27 Identities=33% Similarity=0.503 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccCCc
Q 034559 45 DEALQVLRSDLMATLNKEVKSLDEDNW 71 (91)
Q Consensus 45 Deam~~LKsdlmaaL~kEVKsLdeD~W 71 (91)
||-+..|-++=++.|++|...+|-||=
T Consensus 18 DelL~~LS~EEL~~L~~el~e~DPd~~ 44 (147)
T PF03250_consen 18 DELLAKLSPEELEELENELEEMDPDNS 44 (147)
T ss_pred HHHHHhCCHHHHHHHHHHHHhhCCCcc
Confidence 788889999999999999999999983
No 64
>TIGR02457 TreS_Cterm trehalose synthase-fused probable maltokinase. Three pathways for the biosynthesis of trehalose, an osmoprotectant that in some species is also a precursor of certain cell wall glycolipids. Trehalose synthase, TreS, can interconvert maltose and trehalose, but while the equilibrium may favor trehalose, physiological concentrations of trehalose may be much greater than that of maltose and TreS may act largely in its degradation. This model describes a domain found only as a C-terminal fusion to TreS proteins. The most closely related proteins outside this family, Pep2 of Streptomyces coelicolor and Mak1 of Actinoplanes missouriensis, have known maltokinase activity. We suggest this domain acts as a maltokinase and helps drive conversion of trehalose to maltose.
Probab=20.79 E-value=2.4e+02 Score=24.19 Aligned_cols=18 Identities=17% Similarity=0.255 Sum_probs=12.8
Q ss_pred ccccCCCCCCcchhhhhh
Q 034559 27 ATDEFHFPSDLISIQDRK 44 (91)
Q Consensus 27 a~ddfhfp~D~is~~~RK 44 (91)
..+|=.|++++++.+|.+
T Consensus 304 ~~~~~aF~pep~~~~~~~ 321 (528)
T TIGR02457 304 GGEDPAFAPEPISTLYQR 321 (528)
T ss_pred CCCCCCCCCCCCCHHHHH
Confidence 356767888888877653
No 65
>TIGR00082 rbfA ribosome-binding factor A. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype.
Probab=20.32 E-value=1.5e+02 Score=20.08 Aligned_cols=25 Identities=20% Similarity=0.230 Sum_probs=21.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhccc
Q 034559 42 DRKDEALQVLRSDLMATLNKEVKSL 66 (91)
Q Consensus 42 ~RKDeam~~LKsdlmaaL~kEVKsL 66 (91)
+|.+..=..||.+|-+.|.+|++.-
T Consensus 4 ~R~~Rv~~~i~~eis~il~~~i~dp 28 (114)
T TIGR00082 4 YRKERVESDIIREINRILIREIKDP 28 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCC
Confidence 4777778899999999999998753
No 66
>PRK13815 ribosome-binding factor A; Provisional
Probab=20.02 E-value=1.4e+02 Score=20.70 Aligned_cols=24 Identities=17% Similarity=0.277 Sum_probs=20.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhcc
Q 034559 42 DRKDEALQVLRSDLMATLNKEVKS 65 (91)
Q Consensus 42 ~RKDeam~~LKsdlmaaL~kEVKs 65 (91)
.|....=.++|.+|...|++|+|.
T Consensus 3 ~R~~Rv~~~Ir~eis~il~~~i~d 26 (122)
T PRK13815 3 KRSEKVAEAIHELISGLLVKGLKD 26 (122)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCcC
Confidence 477777789999999999998874
Done!