Query 047098
Match_columns 113
No_of_seqs 105 out of 147
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 07:35:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047098.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047098hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3404 G10 protein/predicted 100.0 9.7E-49 2.1E-53 294.8 5.9 88 1-113 1-116 (145)
2 PF01125 G10: G10 protein; In 100.0 3.9E-47 8.4E-52 285.7 7.1 88 1-113 1-117 (145)
3 COG5132 BUD31 Cell cycle contr 100.0 5.6E-39 1.2E-43 241.8 5.9 88 1-113 1-116 (146)
4 PF07765 KIP1: KIP1-like prote 78.9 2.8 6E-05 29.2 3.2 34 17-50 15-59 (74)
5 PRK11798 ClpXP protease specif 71.8 2.5 5.4E-05 32.3 1.6 20 43-62 12-31 (138)
6 COG2969 SspB Stringent starvat 56.1 7 0.00015 30.7 1.5 14 43-56 13-26 (155)
7 PRK12726 flagellar biosynthesi 43.7 29 0.00062 30.6 3.4 47 12-63 116-164 (407)
8 COG0649 NuoD NADH:ubiquinone o 42.8 22 0.00048 31.4 2.7 51 9-62 169-230 (398)
9 PF08343 RNR_N: Ribonucleotide 42.5 84 0.0018 21.7 5.0 54 10-63 11-64 (82)
10 PF08513 LisH: LisH; InterPro 42.1 12 0.00025 20.7 0.6 14 45-58 6-19 (27)
11 PF11808 DUF3329: Domain of un 34.2 58 0.0013 22.1 3.1 25 9-33 61-88 (90)
12 PF14553 YqbF: YqbF, hypotheti 33.6 34 0.00074 21.6 1.8 14 43-56 22-35 (43)
13 PF09388 SpoOE-like: Spo0E lik 31.3 1E+02 0.0022 18.4 3.6 28 44-75 11-38 (45)
14 PRK06342 transcription elongat 27.0 30 0.00065 26.2 0.9 22 11-32 32-53 (160)
15 COG2832 Uncharacterized protei 26.4 37 0.0008 25.6 1.2 29 38-66 38-66 (119)
16 cd07608 BAR_ArfGAP_fungi The B 25.7 34 0.00073 27.3 1.0 51 17-67 82-140 (192)
17 COG3433 Aryl carrier domain [S 25.3 44 0.00094 23.5 1.3 8 88-95 40-47 (74)
18 PF12029 DUF3516: Domain of un 24.8 32 0.00069 31.0 0.7 20 39-58 95-114 (461)
19 smart00667 LisH Lissencephaly 22.4 39 0.00086 17.4 0.5 16 44-59 8-23 (34)
20 PF00346 Complex1_49kDa: Respi 21.6 1.1E+02 0.0024 24.9 3.2 51 9-62 42-103 (272)
21 KOG4019 Calcineurin-mediated s 21.5 33 0.00071 27.8 0.1 12 9-20 114-125 (193)
22 PF01020 Ribosomal_L40e: Ribos 20.6 72 0.0016 21.0 1.6 14 18-31 2-15 (52)
23 CHL00017 ndhH NADH dehydrogena 20.3 98 0.0021 26.6 2.7 51 10-63 166-227 (393)
No 1
>KOG3404 consensus G10 protein/predicted nuclear transcription regulator [Transcription]
Probab=100.00 E-value=9.7e-49 Score=294.85 Aligned_cols=88 Identities=49% Similarity=0.953 Sum_probs=85.7
Q ss_pred CCCCCCCCCCCCCchhchHHHHHHHHHHHHhccc------cc-------------------hhhhhh---hHHHHHHHHh
Q 047098 1 MPKVKTNRVQNPEGWELIKPTLRELQAKMREGGL------RA-------------------AMFLTR---TMELYEFCLD 52 (113)
Q Consensus 1 MPkirt~~~~pPeGwelIepTL~el~~KMReae~------rk-------------------~lyykr---S~eLYe~cl~ 52 (113)
|||||++|++||+|||+|||||+||++||||||+ |+ |||||| |+|||+||++
T Consensus 1 mpkv~~~rk~~Pdg~e~IeptL~e~e~kmReae~~~~~~~~~~E~lwpIfqlhHQrsRYiYdlyykR~~IS~eLY~~~l~ 80 (145)
T KOG3404|consen 1 MPKVKRSRKPPPDGWELIEPTLEEFEAKMREAETEPHEGKRKTESLWPIFQLHHQRSRYIYDLYYKRKAISRELYDYCLK 80 (145)
T ss_pred CCccCcCCCCCCcchhhhhhhHHHHHHHHHHhhcCcccCCCcchhhhhHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999 32 999999 9999999999
Q ss_pred cCCCChhhhhhhhhhhhhhHHHHHHHHHHhhhhcccccccchhhhhhhcccccCCCCCCCC
Q 047098 53 QGYKSQIWRKKEKVASCKMNRVLEAVAVMFDIDRMMLRIPGYERLCCLRCMQPHDHNFQMT 113 (113)
Q Consensus 53 ~gyaD~~Lia~~~~~~~~~~~~~~~~~~~~~~~~~kWkkpGYEkLCCLrCIQ~~d~NfgtT 113 (113)
++|||++||| ||||+|||+|||||||||+|+|||||
T Consensus 81 ~~yaD~~Lia-------------------------kWkk~GYE~LCClRCIq~~dsn~Gt~ 116 (145)
T KOG3404|consen 81 EKYADKNLIA-------------------------KWKKQGYENLCCLRCIQTRDSNFGTT 116 (145)
T ss_pred cccchHHHHH-------------------------HHhhcCccceeeeeeccccccCCCce
Confidence 9999999999 99999999999999999999999997
No 2
>PF01125 G10: G10 protein; InterPro: IPR001748 A Xenopus protein known as G10 [] has been found to be highly conserved in a wide range of eukaryotic species. The function of G10 is still unknown. G10 is a protein of about 17 to 18 kDa (143 to 157 residues) which is hydrophilic and whose C-terminal half is rich in cysteines and could be involved in metal-binding.; GO: 0005634 nucleus
Probab=100.00 E-value=3.9e-47 Score=285.72 Aligned_cols=88 Identities=44% Similarity=0.855 Sum_probs=84.1
Q ss_pred CCCCCCC-CCCCCCchhchHHHHHHHHHHHHhccc------cc-------------------hhhhhh---hHHHHHHHH
Q 047098 1 MPKVKTN-RVQNPEGWELIKPTLRELQAKMREGGL------RA-------------------AMFLTR---TMELYEFCL 51 (113)
Q Consensus 1 MPkirt~-~~~pPeGwelIepTL~el~~KMReae~------rk-------------------~lyykr---S~eLYe~cl 51 (113)
||||||+ +++||+|||+|||||+||++|||||++ |+ ||||+| |+|||||||
T Consensus 1 MPkir~~~~k~pP~G~~~Ie~tL~e~~~kmr~ae~~~~~~k~k~e~lWpI~rI~hqrSRYIydlyYk~k~ISkeLY~~ll 80 (145)
T PF01125_consen 1 MPKIRTSRKKPPPEGFEKIEPTLEEFEQKMREAENEPHEGKRKNESLWPIFRIHHQRSRYIYDLYYKRKAISKELYDWLL 80 (145)
T ss_pred CCCcccCCCCCCCCchHHHHHHHHHHHHHHHHHhhCCCcCCCCCccccceeeecchhhhHHHHHHHHhhhccHHHHHHHH
Confidence 9999985 499999999999999999999999998 22 999988 999999999
Q ss_pred hcCCCChhhhhhhhhhhhhhHHHHHHHHHHhhhhcccccccchhhhhhhcccccCCCCCCCC
Q 047098 52 DQGYKSQIWRKKEKVASCKMNRVLEAVAVMFDIDRMMLRIPGYERLCCLRCMQPHDHNFQMT 113 (113)
Q Consensus 52 ~~gyaD~~Lia~~~~~~~~~~~~~~~~~~~~~~~~~kWkkpGYEkLCCLrCIQ~~d~NfgtT 113 (113)
+|||||++||| ||||||||+||||+|||+.|+|||||
T Consensus 81 ~~~yaD~~LIa-------------------------KWKk~GYE~LCCl~Ciq~~~~n~g~t 117 (145)
T PF01125_consen 81 KEKYADANLIA-------------------------KWKKPGYEKLCCLRCIQTRDTNFGTT 117 (145)
T ss_pred HcCCcCHHHHH-------------------------HhccccHHHHHHHHHhccccccCCCc
Confidence 99999999999 99999999999999999999999997
No 3
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=100.00 E-value=5.6e-39 Score=241.77 Aligned_cols=88 Identities=35% Similarity=0.718 Sum_probs=84.0
Q ss_pred CCCCCCCC-CCCCCchhchHHHHHHHHHHHHhcccc--------------------c----hhhhhh---hHHHHHHHHh
Q 047098 1 MPKVKTNR-VQNPEGWELIKPTLRELQAKMREGGLR--------------------A----AMFLTR---TMELYEFCLD 52 (113)
Q Consensus 1 MPkirt~~-~~pPeGwelIepTL~el~~KMReae~r--------------------k----~lyykr---S~eLYe~cl~ 52 (113)
||+|+|+| ++||.|||.|+|||.+|+.+||+|||- . +||||| |.+||.|+++
T Consensus 1 MPRi~t~rskp~PdgFeki~ptL~~fe~~mRqaen~~~~~sk~E~lwpIfQLHHQRSRYIY~LyyKR~aISt~LY~wL~k 80 (146)
T COG5132 1 MPRIPTNRSKPAPDGFEKIRPTLEKFEAEMRQAENAPLAPSKPENLWPIFQLHHQRSRYIYNLYYKRGAISTKLYGWLSK 80 (146)
T ss_pred CCcCccCCCCCCCcchhhhcchHHHHHHHHHHHhcCCCCCCChHHhhHHHHHHHhhhHHHHHHHhhhhhHHHHHHHHHHH
Confidence 99999988 666999999999999999999999991 1 899999 9999999999
Q ss_pred cCCCChhhhhhhhhhhhhhHHHHHHHHHHhhhhcccccccchhhhhhhcccccCCCCCCCC
Q 047098 53 QGYKSQIWRKKEKVASCKMNRVLEAVAVMFDIDRMMLRIPGYERLCCLRCMQPHDHNFQMT 113 (113)
Q Consensus 53 ~gyaD~~Lia~~~~~~~~~~~~~~~~~~~~~~~~~kWkkpGYEkLCCLrCIQ~~d~NfgtT 113 (113)
+.|||.+||+ ||+|+|||+||||||||+.++|||+|
T Consensus 81 ~~yaD~~Lia-------------------------kW~k~GYEkLCCLRCIQ~~esk~Gst 116 (146)
T COG5132 81 NRYADHELIA-------------------------KWDKVGYEKLCCLRCIQPIESKHGST 116 (146)
T ss_pred hcccchhHhh-------------------------hhcccchhhhhhHhhcCcccccCCCE
Confidence 9999999999 99999999999999999999999987
No 4
>PF07765 KIP1: KIP1-like protein; InterPro: IPR011684 This is a group of sequences found exclusively in plants. They are similar to kinase interacting protein 1 (KIP1), which has been found to interact with the kinase domain of PRK1, a receptor-like kinase []. This particular region contains two coiled-coils, which are described as motifs involved in protein-protein interactions []. It has also been suggested that the coiled-coils of the protein allow it to dimerise in vivo [].
Probab=78.90 E-value=2.8 Score=29.22 Aligned_cols=34 Identities=21% Similarity=0.365 Sum_probs=25.8
Q ss_pred chHHHHHHHHHHHHhccc-----------cchhhhhhhHHHHHHH
Q 047098 17 LIKPTLRELQAKMREGGL-----------RAAMFLTRTMELYEFC 50 (113)
Q Consensus 17 lIepTL~el~~KMReae~-----------rk~lyykrS~eLYe~c 50 (113)
-++.||.+++.+|+..-. |.+|||+|--+|...+
T Consensus 15 WL~~~l~dmd~kvk~mlklieedgdSfakrAEmyy~kRp~Li~~v 59 (74)
T PF07765_consen 15 WLQENLSDMDEKVKAMLKLIEEDGDSFAKRAEMYYKKRPELISLV 59 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCcchHHHhhHHHhcccHHHHHHH
Confidence 478899999999996432 7799999966665544
No 5
>PRK11798 ClpXP protease specificity-enhancing factor; Provisional
Probab=71.78 E-value=2.5 Score=32.30 Aligned_cols=20 Identities=25% Similarity=0.518 Sum_probs=14.9
Q ss_pred hHHHHHHHHhcCCCChhhhh
Q 047098 43 TMELYEFCLDQGYKSQIWRK 62 (113)
Q Consensus 43 S~eLYe~cl~~gyaD~~Lia 62 (113)
-|-+||||+|||+--..+++
T Consensus 12 lRA~yeW~~Dn~~TP~l~Vd 31 (138)
T PRK11798 12 LRALYEWIVDNGLTPHLLVD 31 (138)
T ss_pred HHHHHHHHhhCCCCcEEEEE
Confidence 46799999999965554444
No 6
>COG2969 SspB Stringent starvation protein B [General function prediction only]
Probab=56.10 E-value=7 Score=30.67 Aligned_cols=14 Identities=36% Similarity=0.548 Sum_probs=11.7
Q ss_pred hHHHHHHHHhcCCC
Q 047098 43 TMELYEFCLDQGYK 56 (113)
Q Consensus 43 S~eLYe~cl~~gya 56 (113)
-|.+||||+|+++-
T Consensus 13 lRA~yeWl~DN~~T 26 (155)
T COG2969 13 LRALYEWLLDNQLT 26 (155)
T ss_pred HHHHHHHHhcCCCC
Confidence 46799999999953
No 7
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=43.67 E-value=29 Score=30.63 Aligned_cols=47 Identities=15% Similarity=0.169 Sum_probs=37.5
Q ss_pred CCchhchHHHHHHHHHHHHhccccchhhhhh--hHHHHHHHHhcCCCChhhhhh
Q 047098 12 PEGWELIKPTLRELQAKMREGGLRAAMFLTR--TMELYEFCLDQGYKSQIWRKK 63 (113)
Q Consensus 12 PeGwelIepTL~el~~KMReae~rk~lyykr--S~eLYe~cl~~gyaD~~Lia~ 63 (113)
-+-++.|+.-|..++.||++ +|+-.| ++|+|++++++|..+.-+.+=
T Consensus 116 ~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~L~~~gV~~~~~~~l 164 (407)
T PRK12726 116 EEELSAMRLELAALNRELAV-----KMREEREQNSDFVKFLKGRGISDTYVADF 164 (407)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----HhhhhhcccHHHHHHHHHcCCCHHHHHHH
Confidence 37788899999999999993 685456 779999999999777655543
No 8
>COG0649 NuoD NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]
Probab=42.77 E-value=22 Score=31.41 Aligned_cols=51 Identities=27% Similarity=0.472 Sum_probs=41.4
Q ss_pred CCCCCch-hchHHHHHHHHHHHHhccc---cchhhhhh-------hHHHHHHHHhcCCCChhhhh
Q 047098 9 VQNPEGW-ELIKPTLRELQAKMREGGL---RAAMFLTR-------TMELYEFCLDQGYKSQIWRK 62 (113)
Q Consensus 9 ~~pPeGw-elIepTL~el~~KMReae~---rk~lyykr-------S~eLYe~cl~~gyaD~~Lia 62 (113)
.-.|+|| |.|..+|+.|..+++|-++ ...+++.| |+|- .++-|....+|.+
T Consensus 169 ~DlP~~~~e~i~~f~d~~~~~l~eye~l~~~N~I~~~R~~gVGv~s~e~---A~~~G~tGp~lR~ 230 (398)
T COG0649 169 RDLPEGWLELIREFLDYFPKRLDEYEKLLTKNRIWRARLEGVGVLSKEE---ALEWGVTGPMLRA 230 (398)
T ss_pred ccCCHHHHHHHHHHHHHHHHhHHHHHHHHhcChHHHHhcccceeecHHH---HHHhCCcCccccc
Confidence 4567887 6899999999999999887 55677777 6555 8888888888887
No 9
>PF08343 RNR_N: Ribonucleotide reductase N-terminal; InterPro: IPR013554 This domain is found at the N terminus of bacterial ribonucleoside-diphosphate reductases (ribonucleotide reductases, RNRs) which catalyse the formation of deoxyribonucleotides []. It occurs together with the RNR all-alpha domain (IPR013509 from INTERPRO) and the RNR barrel domain (IPR000788 from INTERPRO). ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0006260 DNA replication, 0055114 oxidation-reduction process, 0005971 ribonucleoside-diphosphate reductase complex; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A.
Probab=42.54 E-value=84 Score=21.68 Aligned_cols=54 Identities=11% Similarity=0.131 Sum_probs=34.9
Q ss_pred CCCCchhchHHHHHHHHHHHHhccccchhhhhhhHHHHHHHHhcCCCChhhhhh
Q 047098 10 QNPEGWELIKPTLRELQAKMREGGLRAAMFLTRTMELYEFCLDQGYKSQIWRKK 63 (113)
Q Consensus 10 ~pPeGwelIepTL~el~~KMReae~rk~lyykrS~eLYe~cl~~gyaD~~Lia~ 63 (113)
.+++|.-.++--.+.+++=|++-.+-+.+.+.--.|=.+||+++||-|+.++.+
T Consensus 11 ~~~~G~~~l~kD~eA~~~y~~~~V~pnt~~F~S~~Erl~yLv~~~YYe~~~l~~ 64 (82)
T PF08343_consen 11 YDEDGKIQLEKDKEAVRAYFKEHVNPNTVKFNSLKERLDYLVENDYYEKEVLDK 64 (82)
T ss_dssp --TTS---THHHHHHHHHHHHHTTGGGB---SSHHHHHHHHHHTTSB-HHHHTT
T ss_pred CCCCCCcCchhHHHHHHHHHHHhcccceeecCCHHHHHHHHHHcCcHHHHHHHh
Confidence 467888878887888888888744434455555667789999999999999883
No 10
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=42.07 E-value=12 Score=20.71 Aligned_cols=14 Identities=29% Similarity=0.883 Sum_probs=10.8
Q ss_pred HHHHHHHhcCCCCh
Q 047098 45 ELYEFCLDQGYKSQ 58 (113)
Q Consensus 45 eLYe~cl~~gyaD~ 58 (113)
=+|+|++++||.+.
T Consensus 6 lI~~YL~~~Gy~~t 19 (27)
T PF08513_consen 6 LIYDYLVENGYKET 19 (27)
T ss_dssp HHHHHHHHCT-HHH
T ss_pred HHHHHHHHCCcHHH
Confidence 37999999999764
No 11
>PF11808 DUF3329: Domain of unknown function (DUF3329); InterPro: IPR021766 This family of proteins are functionally uncharacterised. This family is only found in bacteria. ; GO: 0004673 protein histidine kinase activity
Probab=34.16 E-value=58 Score=22.13 Aligned_cols=25 Identities=36% Similarity=0.523 Sum_probs=16.7
Q ss_pred CCCCCc---hhchHHHHHHHHHHHHhcc
Q 047098 9 VQNPEG---WELIKPTLRELQAKMREGG 33 (113)
Q Consensus 9 ~~pPeG---welIepTL~el~~KMReae 33 (113)
..||+| |+.|=..|-.++++-|+..
T Consensus 61 ~~pP~~~G~W~~if~~Lyr~qrr~r~~~ 88 (90)
T PF11808_consen 61 DEPPEGSGIWGEIFDRLYRLQRRNRKRR 88 (90)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHHHHHHc
Confidence 458888 6666666666666666543
No 12
>PF14553 YqbF: YqbF, hypothetical protein domain; PDB: 2HJQ_A.
Probab=33.57 E-value=34 Score=21.64 Aligned_cols=14 Identities=14% Similarity=0.472 Sum_probs=11.5
Q ss_pred hHHHHHHHHhcCCC
Q 047098 43 TMELYEFCLDQGYK 56 (113)
Q Consensus 43 S~eLYe~cl~~gya 56 (113)
|+++|+||.++++-
T Consensus 22 ~kk~y~YL~~ne~F 35 (43)
T PF14553_consen 22 SKKIYNYLNDNEFF 35 (43)
T ss_dssp -HHHHHHHHHSTTE
T ss_pred hHHHHHHHhcCCcE
Confidence 89999999999863
No 13
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=31.30 E-value=1e+02 Score=18.40 Aligned_cols=28 Identities=18% Similarity=0.279 Sum_probs=21.1
Q ss_pred HHHHHHHHhcCCCChhhhhhhhhhhhhhHHHH
Q 047098 44 MELYEFCLDQGYKSQIWRKKEKVASCKMNRVL 75 (113)
Q Consensus 44 ~eLYe~cl~~gyaD~~Lia~~~~~~~~~~~~~ 75 (113)
.+|++.....|+.|+..|. .|-.+|..|
T Consensus 11 ~~L~~~~~~~~l~~~~vl~----~Sq~LD~lI 38 (45)
T PF09388_consen 11 QELNELAEKKGLTDPEVLE----LSQELDKLI 38 (45)
T ss_dssp HHHHHHHHHCCTTCHHHHH----HHHHHHHHH
T ss_pred HHHHHHHHHcCCCCHHHHH----HHHHHHHHH
Confidence 3577767777999998888 677777765
No 14
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=27.04 E-value=30 Score=26.22 Aligned_cols=22 Identities=14% Similarity=0.264 Sum_probs=20.4
Q ss_pred CCCchhchHHHHHHHHHHHHhc
Q 047098 11 NPEGWELIKPTLRELQAKMREG 32 (113)
Q Consensus 11 pPeGwelIepTL~el~~KMRea 32 (113)
.|+|++.++..|..|..++.+|
T Consensus 32 T~~G~~~L~~El~~L~~~i~~A 53 (160)
T PRK06342 32 TEAGLKALEDQLAQARAAYEAA 53 (160)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999998888
No 15
>COG2832 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.44 E-value=37 Score=25.56 Aligned_cols=29 Identities=14% Similarity=0.130 Sum_probs=23.8
Q ss_pred hhhhhhHHHHHHHHhcCCCChhhhhhhhh
Q 047098 38 MFLTRTMELYEFCLDQGYKSQIWRKKEKV 66 (113)
Q Consensus 38 lyykrS~eLYe~cl~~gyaD~~Lia~~~~ 66 (113)
+|-+.|..+|.|++.+.+-++-+.+=++.
T Consensus 38 cFaRsSpRf~~WLl~~~~fg~~v~~~~e~ 66 (119)
T COG2832 38 CFARSSPRFHAWLLRHKYFGPYVRDWREG 66 (119)
T ss_pred HHHcCCcHHHHHHHcCchhhHHHHHHHHc
Confidence 45555999999999999999998885554
No 16
>cd07608 BAR_ArfGAP_fungi The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized fungal Arf GAP proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. This group is composed of uncharacterized fungal proteins containing an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and an Arf GTPase Activating Protein (GAP) domain. These proteins may play roles in Arf-mediated functions involving membrane dynamics. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=25.74 E-value=34 Score=27.25 Aligned_cols=51 Identities=16% Similarity=0.179 Sum_probs=36.7
Q ss_pred chHHHHHHHH-HHHHhccccchhhhhhhHHHHHHHHh-------cCCCChhhhhhhhhh
Q 047098 17 LIKPTLRELQ-AKMREGGLRAAMFLTRTMELYEFCLD-------QGYKSQIWRKKEKVA 67 (113)
Q Consensus 17 lIepTL~el~-~KMReae~rk~lyykrS~eLYe~cl~-------~gyaD~~Lia~~~~~ 67 (113)
.|+|.+.-++ .-+++++.+|--|-..||+-|.|+-+ +.=.|.-+.+|++.-
T Consensus 82 ~iep~~~~y~~~dik~~~~kkK~FEeeSKdYYs~l~kYLsn~~~~k~~DSK~l~KRk~F 140 (192)
T cd07608 82 KIEPLLKIYSINDIKELSDKKKDFEEESKDYYSWLSKYLSNESDKKRPDSKLLAKRKTF 140 (192)
T ss_pred HHhhhhhccccchHHHHHHHhhhHHHHhHHHHHHHHHHhcccccccCcchHHHHHHHHH
Confidence 4777777777 67777777777788889999999753 234666677777654
No 17
>COG3433 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.25 E-value=44 Score=23.47 Aligned_cols=8 Identities=25% Similarity=0.269 Sum_probs=6.6
Q ss_pred cccccchh
Q 047098 88 MLRIPGYE 95 (113)
Q Consensus 88 kWkkpGYE 95 (113)
+||+.|++
T Consensus 40 ~wR~~G~~ 47 (74)
T COG3433 40 RWRKRGAD 47 (74)
T ss_pred HHHHcCCc
Confidence 79998875
No 18
>PF12029 DUF3516: Domain of unknown function (DUF3516); InterPro: IPR021904 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 460 to 473 amino acids in length. This domain is found associated with PF00270 from PFAM, PF00271 from PFAM.
Probab=24.79 E-value=32 Score=31.04 Aligned_cols=20 Identities=30% Similarity=0.612 Sum_probs=14.4
Q ss_pred hhhhhHHHHHHHHhcCCCCh
Q 047098 39 FLTRTMELYEFCLDQGYKSQ 58 (113)
Q Consensus 39 yykrS~eLYe~cl~~gyaD~ 58 (113)
..+|.-+||.=+++.|.+-.
T Consensus 95 ~~~ra~~i~r~L~~agvve~ 114 (461)
T PF12029_consen 95 LIRRAIEIYRSLLDAGVVER 114 (461)
T ss_pred HHHHHHHHHHHHHhCCCEEE
Confidence 33447789999998886654
No 19
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=22.43 E-value=39 Score=17.42 Aligned_cols=16 Identities=25% Similarity=0.519 Sum_probs=12.7
Q ss_pred HHHHHHHHhcCCCChh
Q 047098 44 MELYEFCLDQGYKSQI 59 (113)
Q Consensus 44 ~eLYe~cl~~gyaD~~ 59 (113)
+=+++|++.+||.+..
T Consensus 8 ~lI~~yL~~~g~~~ta 23 (34)
T smart00667 8 RLILEYLLRNGYEETA 23 (34)
T ss_pred HHHHHHHHHcCHHHHH
Confidence 3489999999997654
No 20
>PF00346 Complex1_49kDa: Respiratory-chain NADH dehydrogenase, 49 Kd subunit; InterPro: IPR001135 This entry represents subunit D (NuoD) of NADH-quinone oxidoreductase (1.6.99.5 from EC), and subunit H (NdhH) of NAD(P)H-quinone oxidoreductase (1.6.5.- from EC). NADH-quinone (Q) oxidoreductase is a large and complex redox proton pump, which utilises the free energy derived from oxidation of NADH with lipophilic electron/proton carrier Q to translocate protons across the membrane to generate an electrochemical proton gradient []. Subunit D (NuoD) is a 49kDa polypeptide that appears to be evolutionarily important in determining the physiological function of complex I/NDH-1 [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0048038 quinone binding, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2FUG_V 3M9S_4 3I9V_4 3IAS_4 3IAM_4 2YBB_4.
Probab=21.56 E-value=1.1e+02 Score=24.88 Aligned_cols=51 Identities=29% Similarity=0.408 Sum_probs=36.6
Q ss_pred CCCCCch-hchHHHHHHHHHHHHhccc---cchhhhhh-------hHHHHHHHHhcCCCChhhhh
Q 047098 9 VQNPEGW-ELIKPTLRELQAKMREGGL---RAAMFLTR-------TMELYEFCLDQGYKSQIWRK 62 (113)
Q Consensus 9 ~~pPeGw-elIepTL~el~~KMReae~---rk~lyykr-------S~eLYe~cl~~gyaD~~Lia 62 (113)
...|+|| +.|...|+++..++.+.++ ....+..| |.|. .++-|.....+.|
T Consensus 42 ~Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~~n~~~~~R~~gvGvls~e~---A~~~g~~Gp~~RA 103 (272)
T PF00346_consen 42 RDLPDGWLEDILEFLDEFEKRVEEYEDLLLDNPIFRDRLRGVGVLSAED---ALDLGAVGPVARA 103 (272)
T ss_dssp S---TTHHHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHSSSS-BSHHH---HHHHTT-SSSSGG
T ss_pred ccCchhHHHHHHHHHHHHHHHHHHHHHhhccCcchhhccCCEeEECHHH---HHHhcCCCccccc
Confidence 3456777 8899999999999999875 34566666 7776 7788888888877
No 21
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=21.51 E-value=33 Score=27.82 Aligned_cols=12 Identities=42% Similarity=0.880 Sum_probs=9.6
Q ss_pred CCCCCchhchHH
Q 047098 9 VQNPEGWELIKP 20 (113)
Q Consensus 9 ~~pPeGwelIep 20 (113)
--||-|||.||+
T Consensus 114 aSPPvgWe~~ed 125 (193)
T KOG4019|consen 114 ASPPVGWEPIED 125 (193)
T ss_pred CCCCCCCccccc
Confidence 347899999985
No 22
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=20.57 E-value=72 Score=21.05 Aligned_cols=14 Identities=43% Similarity=0.641 Sum_probs=10.3
Q ss_pred hHHHHHHHHHHHHh
Q 047098 18 IKPTLRELQAKMRE 31 (113)
Q Consensus 18 IepTL~el~~KMRe 31 (113)
|||+|..|.+|-..
T Consensus 2 iePsl~~la~K~n~ 15 (52)
T PF01020_consen 2 IEPSLRALAQKYNC 15 (52)
T ss_dssp --HHHHHHHHHHHT
T ss_pred cChHHHHHHHHHcc
Confidence 89999999998764
No 23
>CHL00017 ndhH NADH dehydrogenase subunit 7
Probab=20.30 E-value=98 Score=26.58 Aligned_cols=51 Identities=22% Similarity=0.302 Sum_probs=38.0
Q ss_pred CCCCch-hchHHHHHHHHHHHHhccc---cchhhhhh-------hHHHHHHHHhcCCCChhhhhh
Q 047098 10 QNPEGW-ELIKPTLRELQAKMREGGL---RAAMFLTR-------TMELYEFCLDQGYKSQIWRKK 63 (113)
Q Consensus 10 ~pPeGw-elIepTL~el~~KMReae~---rk~lyykr-------S~eLYe~cl~~gyaD~~Lia~ 63 (113)
..|++| +.|...|++++.++.+.+. ....+..| |++. .++-|.....+.|+
T Consensus 166 Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~~n~i~~~R~~gvGvl~~~~---A~~~g~~GP~aRAS 227 (393)
T CHL00017 166 DLPYGWIDKCLDFCDYFLTGVAEYQKLITRNPIFLERVEGVGIIGGEE---AINWGLSGPMLRAS 227 (393)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhcCCEEecCHHH---HHHhCCcCceeeec
Confidence 446677 7899999999999998875 23466666 6666 77777777777774
Done!