Query psy9336
Match_columns 99
No_of_seqs 105 out of 253
Neff 5.0
Searched_HMMs 46136
Date Sat Aug 17 00:42:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9336.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9336hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2157|consensus 99.0 2.7E-10 5.9E-15 95.6 4.3 70 25-99 72-143 (497)
2 KOG2156|consensus 98.8 1.2E-09 2.6E-14 92.9 1.3 71 22-99 190-261 (662)
3 KOG2158|consensus 93.8 0.0068 1.5E-07 51.8 -2.4 35 57-97 151-185 (565)
4 PF11193 DUF2812: Protein of u 78.9 4.7 0.0001 26.8 4.3 49 24-73 33-90 (115)
5 PF06399 GFRP: GTP cyclohydrol 70.1 3.7 8.1E-05 27.5 2.0 35 30-64 45-79 (83)
6 PF14847 Ras_bdg_2: Ras-bindin 63.4 1.7 3.8E-05 29.8 -0.6 48 38-95 25-77 (105)
7 KOG2155|consensus 60.3 9.2 0.0002 33.3 3.0 62 28-96 305-366 (631)
8 PRK13999 potassium-transportin 53.2 7.3 0.00016 29.9 1.2 18 7-24 86-103 (201)
9 PRK13995 potassium-transportin 44.9 12 0.00027 28.7 1.3 18 7-24 84-101 (203)
10 TIGR00681 kdpC K+-transporting 42.6 14 0.0003 28.1 1.2 18 7-24 73-90 (187)
11 PRK00315 potassium-transportin 41.9 14 0.00031 28.1 1.2 18 7-24 75-92 (193)
12 PF00919 UPF0004: Uncharacteri 41.4 30 0.00065 23.0 2.6 30 39-69 18-47 (98)
13 PRK13998 potassium-transportin 38.6 16 0.00034 27.8 1.0 17 8-24 81-97 (186)
14 PF05382 Amidase_5: Bacterioph 37.8 26 0.00057 25.3 2.0 21 39-60 55-75 (145)
15 PRK14000 potassium-transportin 37.3 18 0.00039 27.4 1.1 17 8-24 82-98 (185)
16 PF15337 Vasculin: Vascular pr 34.5 27 0.00058 24.1 1.5 14 41-54 13-26 (97)
17 PRK14001 potassium-transportin 33.9 19 0.00042 27.3 0.8 18 7-24 74-91 (189)
18 TIGR01619 hyp_HI0040 conserved 31.6 26 0.00056 27.6 1.2 40 28-69 91-133 (249)
19 TIGR02695 azurin azurin. Azuri 29.8 24 0.00052 25.2 0.7 15 83-97 105-119 (125)
20 PRK13994 potassium-transportin 29.8 30 0.00064 27.0 1.2 18 7-24 100-117 (222)
21 PRK14003 potassium-transportin 29.1 27 0.00058 26.6 0.9 18 7-24 82-99 (194)
22 PRK14002 potassium-transportin 27.3 29 0.00064 26.3 0.8 16 9-24 72-87 (186)
23 PRK02813 putative aminopeptida 27.1 48 0.001 27.7 2.1 21 40-61 28-48 (428)
24 PF02669 KdpC: K+-transporting 27.0 33 0.00072 26.0 1.1 16 9-24 76-91 (188)
25 PF02127 Peptidase_M18: Aminop 25.3 46 0.001 27.9 1.7 21 40-61 15-35 (432)
26 PTZ00371 aspartyl aminopeptida 24.7 57 0.0012 27.5 2.2 21 40-61 29-49 (465)
27 PRK13996 potassium-transportin 23.6 39 0.00084 25.8 0.9 18 7-24 80-97 (197)
28 PF01585 G-patch: G-patch doma 23.2 58 0.0013 18.7 1.4 16 37-52 2-17 (45)
29 COG0505 CarA Carbamoylphosphat 23.2 1.3E+02 0.0027 25.3 3.8 46 2-51 159-204 (368)
30 PRK10562 putative acetyltransf 23.0 2.1E+02 0.0046 18.8 4.4 36 28-63 99-136 (145)
31 PF01427 Peptidase_M15: D-ala- 22.5 1.1E+02 0.0024 22.8 3.2 34 39-74 161-194 (198)
32 COG2156 KdpC K+-transporting A 22.1 50 0.0011 25.2 1.2 18 7-24 76-93 (190)
33 KOG3490|consensus 22.1 22 0.00048 25.0 -0.6 17 81-97 65-82 (111)
34 KOG3347|consensus 21.2 85 0.0018 23.7 2.3 29 25-53 91-119 (176)
35 COG1724 Predicted RNA binding 21.1 76 0.0016 20.4 1.7 14 40-53 12-25 (66)
36 TIGR01579 MiaB-like-C MiaB-lik 20.4 1E+02 0.0022 24.8 2.8 30 39-69 15-44 (414)
37 PF08373 RAP: RAP domain; Int 20.1 35 0.00077 19.7 0.0 22 40-61 23-44 (58)
No 1
>KOG2157|consensus
Probab=99.01 E-value=2.7e-10 Score=95.60 Aligned_cols=70 Identities=36% Similarity=0.714 Sum_probs=56.4
Q ss_pred CCCceEEEecCCch-HHHHHHHhcCCEEccCCCCCceEEecccccccccccccccCCCCCC-CeecCCCCccccccC
Q psy9336 25 RQNKIYYCTDLDKS-VLINNFEKRGWIHVNSVEDDWNFYWAGIQTCRNIFSLELGYRMNDN-QIINHFPNHYELTNL 99 (99)
Q Consensus 25 ~~~~i~f~~~~~~t-vv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~~~~f~~~~~~~L~~~-QrVNHFPn~yELTRK 99 (99)
...+|.|+++..+. +|.+.+.++||.++.....+|||+|+.++.+...+. .+.++ |+|||||+++|||||
T Consensus 72 ~k~~i~y~~~~~~~~~i~~~~~~~G~l~~~~~~~~~~f~w~~~~~~~~~~~-----~~~p~~~~~~~~p~~~~L~rk 143 (497)
T KOG2157|consen 72 GKHKIKYRTQEKEPKLLNNFLNREGWLQFTESAEDWNFYWRGYEGIDFDFS-----WLAPYNQVVNHFPRRKELTRK 143 (497)
T ss_pred CCCceEEEecccchHHHHHHHhhcceeeecccccceEEEEeccccccHHHh-----hhcchhhhhhccccHHHhhhh
Confidence 34689999999986 444444445999987677899999999877766553 57788 999999999999997
No 2
>KOG2156|consensus
Probab=98.81 E-value=1.2e-09 Score=92.94 Aligned_cols=71 Identities=20% Similarity=0.345 Sum_probs=57.1
Q ss_pred CCCCCCceEEEecCCc-hHHHHHHHhcCCEEccCCCCCceEEecccccccccccccccCCCCCCCeecCCCCccccccC
Q psy9336 22 PSDRQNKIYYCTDLDK-SVLINNFEKRGWIHVNSVEDDWNFYWAGIQTCRNIFSLELGYRMNDNQIINHFPNHYELTNL 99 (99)
Q Consensus 22 ~~~~~~~i~f~~~~~~-tvv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~~~~f~~~~~~~L~~~QrVNHFPn~yELTRK 99 (99)
+++....++|+.+-.- .||+.+|.+-||+.++ ..+||..+|....-... .+.+++||+||||||+|.|.||
T Consensus 190 p~~~~~vl~w~~t~~~p~vv~~vl~~sgfkivk-~n~dw~g~Wg~h~ksp~------fr~ir~HQkvNH~PGsF~IGRK 261 (662)
T KOG2156|consen 190 PPPLHAVLKWKPTEVMPKVVRQVLANSGFKIVK-VNDDWMGVWGHHLKSPS------FRAIRSHQKVNHFPGSFRIGRK 261 (662)
T ss_pred ChhHHHHhccCCcchhHHHHHHHHHhcccEEec-ccchHHHHhhhhcCCch------hhhhhhhhhhccCCCccccccc
Confidence 4444566788776643 4789999999999999 88999999987654433 2468999999999999999998
No 3
>KOG2158|consensus
Probab=93.83 E-value=0.0068 Score=51.79 Aligned_cols=35 Identities=20% Similarity=0.086 Sum_probs=25.0
Q ss_pred CCceEEecccccccccccccccCCCCCCCeecCCCCccccc
Q psy9336 57 DDWNFYWAGIQTCRNIFSLELGYRMNDNQIINHFPNHYELT 97 (99)
Q Consensus 57 ~dWnl~W~d~~~~~~~f~~~~~~~L~~~QrVNHFPn~yELT 97 (99)
.+|++.|+.....-.+ ++.++ .|+|||||+|-|++
T Consensus 151 ~~~~~l~~v~f~~~~~-----~~~~~-fqrvn~fPgm~e~~ 185 (565)
T KOG2158|consen 151 EKYENLLAVAFQTFLS-----GRAAS-FQRENNFPGMREKE 185 (565)
T ss_pred hhhhhHHHHhhchhhh-----ccchh-hhhhhcCchHHHHH
Confidence 4688888764333222 34566 89999999999987
No 4
>PF11193 DUF2812: Protein of unknown function (DUF2812); InterPro: IPR021359 This is a bacterial family of uncharacterised proteins, however some members of this family are annotated as membrane proteins.
Probab=78.91 E-value=4.7 Score=26.82 Aligned_cols=49 Identities=20% Similarity=0.441 Sum_probs=37.9
Q ss_pred CCCCceEEEecCC----c--h-HHHHHHHhcCCEEc-cCCCCCceEEeccccccc-ccc
Q psy9336 24 DRQNKIYYCTDLD----K--S-VLINNFEKRGWIHV-NSVEDDWNFYWAGIQTCR-NIF 73 (99)
Q Consensus 24 ~~~~~i~f~~~~~----~--t-vv~~vl~~rGW~ev-~~~~~dWnl~W~d~~~~~-~~f 73 (99)
+.+..++|+.|+. + . =-.+.++..||+.+ . ....|.++.+...... +++
T Consensus 33 ~ep~~~~Y~vd~~~~~~~~~~~~y~~~~e~~GW~~v~~-~~~~~~if~~~~~~~~~~i~ 90 (115)
T PF11193_consen 33 GEPKDYRYRVDFNDPKSKEEQKEYLEFFEEAGWEYVYS-NFGGWQIFRKEEDDGPPEIY 90 (115)
T ss_pred CCCceEEEEEEEccccchhhhHHHHHHHHHCCCEEEec-cCcEEEEEEEcCCCCCCCCc
Confidence 4577899999987 2 1 24588999999999 6 6788999999877665 444
No 5
>PF06399 GFRP: GTP cyclohydrolase I feedback regulatory protein (GFRP); InterPro: IPR009112 GTP cyclohydrolase I feedback regulatory protein (GFRP) in mammals helps regulate the biosynthesis of tetrahydrobiopterin through the feedback inhibition of the rate-limiting enzyme GTP cyclohydrolase I (GTPCHI). Tetrahydrobiopterin is the cofactor required for the hydroxylation of aromatic amino acids. The crystal structure of GFRP reveals that the protein forms a homopentamer []. In the presence of phenylalanine, the stimulatory complex consists of a GTPCHI decamer sandwiched by two GFRP pentamers, which is thought to enhance GTPCHI activity by locking the enzyme in the active state []. The structure of GFRP consists of two alpha/beta layers arranged beta(2)-alpha-beta(2)-alpha-beta(2), with antiparallel beta-sheets in the order 342165.; GO: 0009890 negative regulation of biosynthetic process; PDB: 1IS7_N 1IS8_Q 1WPL_T 1JG5_C.
Probab=70.12 E-value=3.7 Score=27.50 Aligned_cols=35 Identities=26% Similarity=0.402 Sum_probs=27.1
Q ss_pred EEEecCCchHHHHHHHhcCCEEccCCCCCceEEec
Q psy9336 30 YYCTDLDKSVLINNFEKRGWIHVNSVEDDWNFYWA 64 (99)
Q Consensus 30 ~f~~~~~~tvv~~vl~~rGW~ev~~~~~dWnl~W~ 64 (99)
-|.++....+|.+-|+.+||+.+.-....+-+.||
T Consensus 45 ey~~~~~Pr~VLnKLE~~G~kVvsmtgvgqt~vWt 79 (83)
T PF06399_consen 45 EYHVDDPPRVVLNKLEKMGYKVVSMTGVGQTLVWT 79 (83)
T ss_dssp EEEESS-HHHHHHHHHHTTEEEEEEEEETTEEEEE
T ss_pred EEEcCCChHHHHHHHHhcCeEEEEEeccCceEEEE
Confidence 57778777777899999999988644556788886
No 6
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=63.39 E-value=1.7 Score=29.83 Aligned_cols=48 Identities=21% Similarity=0.309 Sum_probs=31.2
Q ss_pred hHHHHHHHhcCCEEccCCCCCceEEeccc-----ccccccccccccCCCCCCCeecCCCCccc
Q psy9336 38 SVLINNFEKRGWIHVNSVEDDWNFYWAGI-----QTCRNIFSLELGYRMNDNQIINHFPNHYE 95 (99)
Q Consensus 38 tvv~~vl~~rGW~ev~~~~~dWnl~W~d~-----~~~~~~f~~~~~~~L~~~QrVNHFPn~yE 95 (99)
.|+..+|++.|..+ ...+|++|+.+. ..++.+.|. +--.|+|.|+.-|
T Consensus 25 eI~~rvLKKfg~~~---~~~~~~~~v~d~~~~~~~~~~~LsD~-------EL~~IC~s~~r~e 77 (105)
T PF14847_consen 25 EIKRRVLKKFGLPE---HPRNYCFYVLDGESPDPSNCRPLSDV-------ELVTICHSPDRPE 77 (105)
T ss_dssp HHHHHHHHHHTSS-----CCCEEEEEE-S-----SSEEEE-SS-------HHHHHHHTT--SS
T ss_pred HHHHHHHHHcCCcc---ccccceEEEecccccccccceECcHH-------HHHHHHcCCCCcc
Confidence 48899999999988 256899999998 444555443 2346788887655
No 7
>KOG2155|consensus
Probab=60.28 E-value=9.2 Score=33.28 Aligned_cols=62 Identities=19% Similarity=0.155 Sum_probs=45.5
Q ss_pred ceEEEecCCchHHHHHHHhcCCEEccCCCCCceEEecccccccccccccccCCCCCCCeecCCCCcccc
Q psy9336 28 KIYYCTDLDKSVLINNFEKRGWIHVNSVEDDWNFYWAGIQTCRNIFSLELGYRMNDNQIINHFPNHYEL 96 (99)
Q Consensus 28 ~i~f~~~~~~tvv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~~~~f~~~~~~~L~~~QrVNHFPn~yEL 96 (99)
+|+--||.. -|.+-|.+.-++-++ +..|=|++|..++.- |+..+..-.|-|.||.||=--=|
T Consensus 305 ~~kVYtD~~--Qv~e~Lt~p~f~~t~-~~kdADilw~~~hf~----Dykkls~e~p~~~iNQFPfE~cl 366 (631)
T KOG2155|consen 305 KIKVYTDDT--QVTEHLTNPKFEYTD-DIKDADILWMIKHFH----DYKKLSEENPCGMINQFPFESCL 366 (631)
T ss_pred eeEEEcCcH--HHHHhccCCceEecc-CccccceeeehhhHH----HHHHHhccCCcceeccCchHHHH
Confidence 566555554 346889999999998 888999999877653 33345567899999999954333
No 8
>PRK13999 potassium-transporting ATPase subunit C; Provisional
Probab=53.15 E-value=7.3 Score=29.87 Aligned_cols=18 Identities=33% Similarity=0.543 Sum_probs=15.7
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
+.||.+.+||++|+++..
T Consensus 86 ~~~y~~~~SGgSNlgpsn 103 (201)
T PRK13999 86 PAPYNAANSMGSNLGPTS 103 (201)
T ss_pred CCCCCcccccccCCCCCC
Confidence 457999999999999875
No 9
>PRK13995 potassium-transporting ATPase subunit C; Provisional
Probab=44.88 E-value=12 Score=28.68 Aligned_cols=18 Identities=33% Similarity=0.523 Sum_probs=15.7
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+.+||++|+++..
T Consensus 84 ~~~y~~~~SggSNlgpsn 101 (203)
T PRK13995 84 NGNYGGVSSGSQNYAPTN 101 (203)
T ss_pred cCCCCcccccccCCCCCC
Confidence 457999999999999875
No 10
>TIGR00681 kdpC K+-transporting ATPase, C subunit. This chain has a single predicted transmembrane region near the amino end. It is part of a K+-transport ATPase that contains two other membrane-bound subunits, KdpA and KdpB, and a small subunit KdpF. KdpA is the K+-translocating subunit, KdpB the ATP-hydrolyzing subunit. During assembly of the complex, KdpA and KdpC bind to each other. This interaction is thought to stabilize the complex [PubMed:9858692]. Data indicates that KdpC might connect the KdpA, the K+-transporting subunit, to KdpB, the ATP-hydrolyzing (energy providing) subunit [PubMed:9858692].
Probab=42.58 E-value=14 Score=28.06 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=15.8
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+.+||++|+++..
T Consensus 73 ~~~y~~~~SggSNl~psn 90 (187)
T TIGR00681 73 YSEYPTGASGGSNLAPSN 90 (187)
T ss_pred CCCCCcccccccCCCCCC
Confidence 558999999999999975
No 11
>PRK00315 potassium-transporting ATPase subunit C; Reviewed
Probab=41.87 E-value=14 Score=28.07 Aligned_cols=18 Identities=39% Similarity=0.805 Sum_probs=15.7
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
+.+|.+.+||++|+++..
T Consensus 75 ~~~y~~~~SggSNl~psn 92 (193)
T PRK00315 75 PMPYNPQASGGSNLAPSN 92 (193)
T ss_pred CCCCCcccccccCCCCCC
Confidence 457999999999999875
No 12
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=41.40 E-value=30 Score=22.98 Aligned_cols=30 Identities=10% Similarity=0.108 Sum_probs=22.0
Q ss_pred HHHHHHHhcCCEEccCCCCCceEEecccccc
Q psy9336 39 VLINNFEKRGWIHVNSVEDDWNFYWAGIQTC 69 (99)
Q Consensus 39 vv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~ 69 (99)
.|...|.++||.+++ +.++=|++=-++-.+
T Consensus 18 ~i~~~l~~~G~~~~~-~~e~AD~iiiNTC~V 47 (98)
T PF00919_consen 18 RIASILQAAGYEIVD-DPEEADVIIINTCTV 47 (98)
T ss_pred HHHHHHHhcCCeeec-ccccCCEEEEEcCCC
Confidence 678999999999998 556667665444333
No 13
>PRK13998 potassium-transporting ATPase subunit C; Provisional
Probab=38.60 E-value=16 Score=27.78 Aligned_cols=17 Identities=24% Similarity=0.159 Sum_probs=14.9
Q ss_pred cceecCCCccccccCCC
Q psy9336 8 YPYQANGSGQQNVSPSD 24 (99)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ 24 (99)
.||.+.+||++|+++..
T Consensus 81 ~~y~~~~SggSNl~psn 97 (186)
T PRK13998 81 LYKNGVSSGGSNESNGN 97 (186)
T ss_pred cCCCcccccccCCCCCC
Confidence 47999999999999875
No 14
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=37.84 E-value=26 Score=25.30 Aligned_cols=21 Identities=29% Similarity=0.613 Sum_probs=16.7
Q ss_pred HHHHHHHhcCCEEccCCCCCce
Q psy9336 39 VLINNFEKRGWIHVNSVEDDWN 60 (99)
Q Consensus 39 vv~~vl~~rGW~ev~~~~~dWn 60 (99)
-+.+.|++.||+++. +..+|+
T Consensus 55 tl~~~L~~~G~~~I~-~~~~~~ 75 (145)
T PF05382_consen 55 TLHDWLKKNGFKKIS-ENVDWN 75 (145)
T ss_pred HHHHHHhhCCcEEec-cCCccc
Confidence 457999999999998 555674
No 15
>PRK14000 potassium-transporting ATPase subunit C; Provisional
Probab=37.31 E-value=18 Score=27.39 Aligned_cols=17 Identities=24% Similarity=0.182 Sum_probs=15.1
Q ss_pred cceecCCCccccccCCC
Q psy9336 8 YPYQANGSGQQNVSPSD 24 (99)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ 24 (99)
.||.+.+||++|+++..
T Consensus 82 ~~y~~~~SggSNl~psn 98 (185)
T PRK14000 82 KESGGPASGGSNYGNSN 98 (185)
T ss_pred cCCCcccccccCCCCCC
Confidence 48999999999999875
No 16
>PF15337 Vasculin: Vascular protein family Vasculin-like 1
Probab=34.47 E-value=27 Score=24.06 Aligned_cols=14 Identities=14% Similarity=0.328 Sum_probs=11.7
Q ss_pred HHHHHhcCCEEccC
Q psy9336 41 INNFEKRGWIHVNS 54 (99)
Q Consensus 41 ~~vl~~rGW~ev~~ 54 (99)
..+|+++||+|..+
T Consensus 13 hRLLk~MGWqEy~e 26 (97)
T PF15337_consen 13 HRLLKAMGWQEYPE 26 (97)
T ss_pred HHHHHHhcccccCc
Confidence 57899999999973
No 17
>PRK14001 potassium-transporting ATPase subunit C; Provisional
Probab=33.90 E-value=19 Score=27.29 Aligned_cols=18 Identities=28% Similarity=0.462 Sum_probs=15.5
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+.+||++|+++..
T Consensus 74 ~~~y~~~~SggSNl~psn 91 (189)
T PRK14001 74 GDGYDAAASSGSNLGPTN 91 (189)
T ss_pred CCCCCcccccccCCCCCC
Confidence 348999999999999975
No 18
>TIGR01619 hyp_HI0040 conserved hypothetical protein, TIGR01619. This model represents a hypothetical equivalog of gamma proteobacteria, includes HI0040. These sequences do not have any similarity to known proteins by PSI-BLAST.
Probab=31.58 E-value=26 Score=27.58 Aligned_cols=40 Identities=15% Similarity=0.434 Sum_probs=28.6
Q ss_pred ceEEEecCCchHHHHHHHhcCCE---EccCCCCCceEEecccccc
Q psy9336 28 KIYYCTDLDKSVLINNFEKRGWI---HVNSVEDDWNFYWAGIQTC 69 (99)
Q Consensus 28 ~i~f~~~~~~tvv~~vl~~rGW~---ev~~~~~dWnl~W~d~~~~ 69 (99)
.+.|-|.... .+.++|...|+. .+. ++.+|++||.--.+-
T Consensus 91 ~~yFY~~~~e-~~~~~l~~f~y~~~~~~~-eDp~Wd~Yf~fLyPs 133 (249)
T TIGR01619 91 KIHFYCDHEE-LFLETLKQFDEIKAIEIQ-KDLHWDIYFDFLLAS 133 (249)
T ss_pred EEEEEcCChH-HHHHHHHhCCcccccccc-cCCCHHHHHHhhCCC
Confidence 4667777766 446888888774 444 788999999766554
No 19
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=29.82 E-value=24 Score=25.21 Aligned_cols=15 Identities=27% Similarity=0.680 Sum_probs=13.3
Q ss_pred CCCeecCCCCccccc
Q psy9336 83 DNQIINHFPNHYELT 97 (99)
Q Consensus 83 ~~QrVNHFPn~yELT 97 (99)
+|.-+|=|||||.|=
T Consensus 105 ~Y~f~CSFPGH~~~M 119 (125)
T TIGR02695 105 DYTFFCSFPGHWAMM 119 (125)
T ss_pred cceEEEcCCCcHHhc
Confidence 699999999999863
No 20
>PRK13994 potassium-transporting ATPase subunit C; Provisional
Probab=29.75 E-value=30 Score=26.98 Aligned_cols=18 Identities=28% Similarity=0.259 Sum_probs=15.7
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+.+||++|+++..
T Consensus 100 ~~~Y~~~~SggSNlgpsn 117 (222)
T PRK13994 100 NTQYSLILSGATNRSADN 117 (222)
T ss_pred CCCCCcccccccCCCCCC
Confidence 458999999999999875
No 21
>PRK14003 potassium-transporting ATPase subunit C; Provisional
Probab=29.11 E-value=27 Score=26.64 Aligned_cols=18 Identities=28% Similarity=0.373 Sum_probs=15.4
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+.+||++|+++..
T Consensus 82 ~~~y~~~~SggSNl~psn 99 (194)
T PRK14003 82 EPAKPTGISGASNLAPSN 99 (194)
T ss_pred ccCCCcCcCCCcCCCCCC
Confidence 457999999999999974
No 22
>PRK14002 potassium-transporting ATPase subunit C; Provisional
Probab=27.30 E-value=29 Score=26.27 Aligned_cols=16 Identities=50% Similarity=0.794 Sum_probs=14.6
Q ss_pred ceecCCCccccccCCC
Q psy9336 9 PYQANGSGQQNVSPSD 24 (99)
Q Consensus 9 ~~~~~~~~~~~~~~~~ 24 (99)
||.+.+||++|+++..
T Consensus 72 ~y~~~~SggSNl~psn 87 (186)
T PRK14002 72 GYNAAGSGGSNKGPSN 87 (186)
T ss_pred CCCcccccccCCCCCC
Confidence 8999999999999875
No 23
>PRK02813 putative aminopeptidase 2; Provisional
Probab=27.05 E-value=48 Score=27.66 Aligned_cols=21 Identities=19% Similarity=0.635 Sum_probs=17.3
Q ss_pred HHHHHHhcCCEEccCCCCCceE
Q psy9336 40 LINNFEKRGWIHVNSVEDDWNF 61 (99)
Q Consensus 40 v~~vl~~rGW~ev~~~~~dWnl 61 (99)
+.+.|++.||+|.+ +.+.|+|
T Consensus 28 ~~~~L~~~Gf~~l~-e~~~w~l 48 (428)
T PRK02813 28 VAQRLEAAGFTELD-ETDAWKL 48 (428)
T ss_pred HHHHHHHcCCeecc-ccccCcc
Confidence 46889999999998 6667875
No 24
>PF02669 KdpC: K+-transporting ATPase, c chain; InterPro: IPR003820 Kdp, the high affinity ATP-driven K+-transport system of Escherichia coli, is a complex of the membrane-bound subunits KdpA, KdpB, KdpC and the small peptide KdpF. KdpC forms strong interactions with the KdpA subunit, serving to assemble and stabilise the Kdp complex []. It has been suggested that KdpC could be one of the connecting links between the energy providing subunit KdpB and the K+- transporting subunit KdpA []. The K+ transport system actively transports K+ ions via ATP hydrolysis.; GO: 0008556 potassium-transporting ATPase activity, 0006813 potassium ion transport, 0016020 membrane
Probab=26.99 E-value=33 Score=25.96 Aligned_cols=16 Identities=44% Similarity=0.775 Sum_probs=14.2
Q ss_pred ceecCCCccccccCCC
Q psy9336 9 PYQANGSGQQNVSPSD 24 (99)
Q Consensus 9 ~~~~~~~~~~~~~~~~ 24 (99)
+|.+.+||++|+++..
T Consensus 76 ~y~~~~SggSNl~psn 91 (188)
T PF02669_consen 76 TYNAAASGGSNLGPSN 91 (188)
T ss_pred CCCccccccccCCCCC
Confidence 4889999999999885
No 25
>PF02127 Peptidase_M18: Aminopeptidase I zinc metalloprotease (M18); InterPro: IPR001948 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M18, (clan MH). The proteins have two catalytic zinc ions at the active site, bound by His/Asp, Asp, Glu, Asp/Glu and His. The catalysed reaction involves the release of an N-terminal aminoacid, usually neutral or hydrophobic, from a polypeptide []. The type example is aminopeptidase I from Saccharomyces cerevisiae (Baker's yeast), the sequence of which has been deduced, and the mature protein shown to consist of 469 amino acids []. A 45-residue presequence contains both positively- and negatively-charged and hydrophobic residues, which could be arranged in an N-terminal amphiphilic alpha-helix []. The presequence differs from signal sequences that direct proteins across bacterial plasma membranes and endoplasmic reticulum or into mitochondria. It is unclear how this unique presequence targets aminopeptidase I to yeast vacuoles, and how this sorting utilises classical protein secretory pathways [].; GO: 0004177 aminopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1Y7E_A 2GLJ_R 4DYO_A 2IJZ_B 3VAT_A 3VAR_A 2GLF_B.
Probab=25.33 E-value=46 Score=27.89 Aligned_cols=21 Identities=19% Similarity=0.631 Sum_probs=17.4
Q ss_pred HHHHHHhcCCEEccCCCCCceE
Q psy9336 40 LINNFEKRGWIHVNSVEDDWNF 61 (99)
Q Consensus 40 v~~vl~~rGW~ev~~~~~dWnl 61 (99)
+.+.|++.||+|.+ +.+.|++
T Consensus 15 ~~~~L~~~GF~eL~-e~~~W~l 35 (432)
T PF02127_consen 15 AKERLEKAGFTELD-ETEKWDL 35 (432)
T ss_dssp HHHHHHHTTHEEST-TTSSTT-
T ss_pred HHHHHHHcCCeEcc-cccccCC
Confidence 46889999999999 8888963
No 26
>PTZ00371 aspartyl aminopeptidase; Provisional
Probab=24.68 E-value=57 Score=27.51 Aligned_cols=21 Identities=24% Similarity=0.689 Sum_probs=17.6
Q ss_pred HHHHHHhcCCEEccCCCCCceE
Q psy9336 40 LINNFEKRGWIHVNSVEDDWNF 61 (99)
Q Consensus 40 v~~vl~~rGW~ev~~~~~dWnl 61 (99)
+.+.|++.||++.+ +.+.|+|
T Consensus 29 ~~~~L~~~GF~~l~-e~~~w~l 49 (465)
T PTZ00371 29 LKERLKKSGFKQLN-EGENWKL 49 (465)
T ss_pred HHHHHHHCcCEEcc-ccccCcc
Confidence 46889999999998 7777985
No 27
>PRK13996 potassium-transporting ATPase subunit C; Provisional
Probab=23.59 E-value=39 Score=25.84 Aligned_cols=18 Identities=22% Similarity=0.191 Sum_probs=15.0
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..+|.+.+||++|+++..
T Consensus 80 ~~~y~~~~SggSNlgpsn 97 (197)
T PRK13996 80 ANGKKLAYSAPSNLSPAS 97 (197)
T ss_pred cccCCcCCccccCCCCCC
Confidence 346899999999999875
No 28
>PF01585 G-patch: G-patch domain; InterPro: IPR000467 The D111/G-patch domain [] is a short conserved region of about 40 amino acids which occurs in a number of putative RNA-binding proteins, including tumor suppressor and DNA-damage-repair proteins, suggesting that this domain may have an RNA binding function. This domain has seven highly conserved glycines. A multiple alignment of a small subset of D111/G-patch domains is shown in Fig. 2b of [].; GO: 0003676 nucleic acid binding, 0005622 intracellular
Probab=23.21 E-value=58 Score=18.66 Aligned_cols=16 Identities=25% Similarity=0.385 Sum_probs=12.2
Q ss_pred chHHHHHHHhcCCEEc
Q psy9336 37 KSVLINNFEKRGWIHV 52 (99)
Q Consensus 37 ~tvv~~vl~~rGW~ev 52 (99)
+.+-..+|++.||.+-
T Consensus 2 ~~~g~~lm~kmGw~~G 17 (45)
T PF01585_consen 2 SSIGFKLMKKMGWKPG 17 (45)
T ss_pred CcHHHHHHHHCCCCCC
Confidence 3455789999999864
No 29
>COG0505 CarA Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]
Probab=23.19 E-value=1.3e+02 Score=25.27 Aligned_cols=46 Identities=26% Similarity=0.322 Sum_probs=28.3
Q ss_pred CcCccccceecCCCccccccCCCCCCceEEEecCCchHHHHHHHhcCCEE
Q psy9336 2 KQASTKYPYQANGSGQQNVSPSDRQNKIYYCTDLDKSVLINNFEKRGWIH 51 (99)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~f~~~~~~tvv~~vl~~rGW~e 51 (99)
+++|||.||.-.+ -+.........+.+-+-.+..|| ..|.+||-..
T Consensus 159 ~~VSt~~~~~~~~---~~~~~~~~~~Vv~iD~GvK~nIl-r~L~~rg~~v 204 (368)
T COG0505 159 KEVSTKEPYTWPG---LNGGGEPGKHVVVIDFGVKRNIL-RELVKRGCRV 204 (368)
T ss_pred ceeecCCceeccc---cccCCCCCcEEEEEEcCccHHHH-HHHHHCCCeE
Confidence 6889999999776 11112222334444444454675 7888999854
No 30
>PRK10562 putative acetyltransferase; Provisional
Probab=23.04 E-value=2.1e+02 Score=18.80 Aligned_cols=36 Identities=17% Similarity=0.261 Sum_probs=24.2
Q ss_pred ceEEEecCCchHHHHHHHhcCCEEccC--CCCCceEEe
Q psy9336 28 KIYYCTDLDKSVLINNFEKRGWIHVNS--VEDDWNFYW 63 (99)
Q Consensus 28 ~i~f~~~~~~tvv~~vl~~rGW~ev~~--~~~dWnl~W 63 (99)
.+.-.+...|......+++.||+++.. .++.|+-.|
T Consensus 99 ~~~~~v~~~N~~s~~~y~k~Gf~~~~~~~~~~~~~~~~ 136 (145)
T PRK10562 99 HLSLEVYQKNQRAVNFYHAQGFRIVDSAWQEETQHPTW 136 (145)
T ss_pred eEEEEEEcCChHHHHHHHHCCCEEccccccCCCCCEEE
Confidence 455566667766579999999998763 233355555
No 31
>PF01427 Peptidase_M15: D-ala-D-ala dipeptidase This is family M15 in the peptidase classification. ; InterPro: IPR000755 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M15 (clan MD), subfamily M15D (vanX D-Ala-D-Ala dipeptidase). The D-alanyl-D-alanine dipeptidase enzyme from Enterococcus faecalis is also known as the vancomycin resistance protein VanX, and hydrolyses D-ala-D-ala. It has a 250-fold differential in catalytic efficiency for hydrolysis of D-ala-D-ala versus D-ala-D-lactate. The latter therefore remains intact for subsequent incorporation into peptidoglycan precursors that terminate in the dipeptide D-ala-D-lactate rather than the dipeptide D-ala-D-ala, thereby preventing vancomycin from binding. The enzyme requires a metal cofactor, and is induced by vancomycin through regulation by VanS and VanR.; GO: 0008237 metallopeptidase activity, 0016805 dipeptidase activity, 0006508 proteolysis, 0005618 cell wall; PDB: 1R44_B.
Probab=22.54 E-value=1.1e+02 Score=22.78 Aligned_cols=34 Identities=18% Similarity=0.445 Sum_probs=23.0
Q ss_pred HHHHHHHhcCCEEccCCCCCceEEeccccccccccc
Q psy9336 39 VLINNFEKRGWIHVNSVEDDWNFYWAGIQTCRNIFS 74 (99)
Q Consensus 39 vv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~~~~f~ 74 (99)
+|+++|++.||+-.. .+=|++-..+..|-...|+
T Consensus 161 lL~~~M~~aGF~~~p--~EWWHf~~~d~~~~~~~~~ 194 (198)
T PF01427_consen 161 LLREAMTKAGFVNYP--TEWWHFSYGDQPWADQYFD 194 (198)
T ss_dssp HHHHHHHTTTEEE-T--T-TTEEEESS-S-TT----
T ss_pred HHHHHHHHcCCccCC--chhcCcCCCCCCCCCceeC
Confidence 789999999999996 6669999999888776665
No 32
>COG2156 KdpC K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]
Probab=22.15 E-value=50 Score=25.24 Aligned_cols=18 Identities=44% Similarity=0.722 Sum_probs=15.0
Q ss_pred ccceecCCCccccccCCC
Q psy9336 7 KYPYQANGSGQQNVSPSD 24 (99)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ 24 (99)
..||.+..||++|+++.-
T Consensus 76 ~~~yn~~aSggSNl~psN 93 (190)
T COG2156 76 GEPYNAVASGGSNLGPSN 93 (190)
T ss_pred CCCCCccccCCcCCCCCC
Confidence 358999999999998864
No 33
>KOG3490|consensus
Probab=22.13 E-value=22 Score=24.98 Aligned_cols=17 Identities=29% Similarity=0.575 Sum_probs=13.6
Q ss_pred CCCCCeecCC-CCccccc
Q psy9336 81 MNDNQIINHF-PNHYELT 97 (99)
Q Consensus 81 L~~~QrVNHF-Pn~yELT 97 (99)
...||||-|| ||+|.|.
T Consensus 65 VakWqri~~f~~G~YAi~ 82 (111)
T KOG3490|consen 65 VAKWQRIGRFTPGMYAIS 82 (111)
T ss_pred HHHHHhhccccCceEEEE
Confidence 5679999999 7888763
No 34
>KOG3347|consensus
Probab=21.23 E-value=85 Score=23.70 Aligned_cols=29 Identities=21% Similarity=0.289 Sum_probs=24.1
Q ss_pred CCCceEEEecCCchHHHHHHHhcCCEEcc
Q psy9336 25 RQNKIYYCTDLDKSVLINNFEKRGWIHVN 53 (99)
Q Consensus 25 ~~~~i~f~~~~~~tvv~~vl~~rGW~ev~ 53 (99)
+.--+.|-..++++++.+=|+.|||.|.+
T Consensus 91 rwfdlVvVLr~~~s~LY~RL~sRgY~e~K 119 (176)
T KOG3347|consen 91 RWFDLVVVLRTPNSVLYDRLKSRGYSEKK 119 (176)
T ss_pred hheeEEEEEecCchHHHHHHHHcCCCHHH
Confidence 34567888899999999999999997654
No 35
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=21.11 E-value=76 Score=20.40 Aligned_cols=14 Identities=36% Similarity=0.593 Sum_probs=12.1
Q ss_pred HHHHHHhcCCEEcc
Q psy9336 40 LINNFEKRGWIHVN 53 (99)
Q Consensus 40 v~~vl~~rGW~ev~ 53 (99)
++.+|++.||.++.
T Consensus 12 ~ik~Le~~Gf~~vr 25 (66)
T COG1724 12 VIKALEKDGFQLVR 25 (66)
T ss_pred HHHHHHhCCcEEEE
Confidence 46999999999886
No 36
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=20.43 E-value=1e+02 Score=24.83 Aligned_cols=30 Identities=27% Similarity=0.303 Sum_probs=23.6
Q ss_pred HHHHHHHhcCCEEccCCCCCceEEecccccc
Q psy9336 39 VLINNFEKRGWIHVNSVEDDWNFYWAGIQTC 69 (99)
Q Consensus 39 vv~~vl~~rGW~ev~~~~~dWnl~W~d~~~~ 69 (99)
.+...|.+.||.+++ +++++||.=-++-.+
T Consensus 15 ~~~~~l~~~g~~~~~-~~~~aD~v~intctv 44 (414)
T TIGR01579 15 SLKNQLIQKGYEVVP-DEDKADVYIINTCTV 44 (414)
T ss_pred HHHHHHHHCcCEECC-CcccCCEEEEecccc
Confidence 678999999999998 667889876665433
No 37
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=20.08 E-value=35 Score=19.72 Aligned_cols=22 Identities=14% Similarity=0.255 Sum_probs=14.9
Q ss_pred HHHHHHhcCCEEccCCCCCceE
Q psy9336 40 LINNFEKRGWIHVNSVEDDWNF 61 (99)
Q Consensus 40 v~~vl~~rGW~ev~~~~~dWnl 61 (99)
=...|+++||..+..+--+|+=
T Consensus 23 k~r~L~~~G~~Vi~Ip~~eW~~ 44 (58)
T PF08373_consen 23 KHRHLKALGYKVISIPYYEWNK 44 (58)
T ss_pred HHHHHHHCCCEEEEecHHHHHh
Confidence 3567888899887644445543
Done!