Query 024673
Match_columns 264
No_of_seqs 132 out of 184
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 06:30:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024673.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024673hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08294 TIM21: TIM21; InterP 100.0 8E-42 1.7E-46 288.0 7.6 116 142-257 1-124 (145)
2 KOG4836 Uncharacterized conser 100.0 2.6E-34 5.7E-39 255.1 6.8 114 140-255 69-187 (215)
3 PF08695 Coa1: Cytochrome oxid 98.1 2.5E-05 5.5E-10 62.5 9.7 81 159-255 7-94 (116)
4 COG3944 Capsular polysaccharid 68.4 4.8 0.0001 37.4 3.0 40 154-205 176-215 (226)
5 PF13850 ERGIC_N: Endoplasmic 64.4 17 0.00036 28.7 5.0 68 146-254 15-88 (96)
6 smart00500 SFM Splicing Factor 58.2 4.4 9.4E-05 28.7 0.6 23 193-215 2-27 (44)
7 PF08799 PRP4: pre-mRNA proces 41.0 6.1 0.00013 25.9 -0.8 19 198-216 5-23 (30)
8 PHA02669 hypothetical protein; 35.6 42 0.00091 30.5 3.3 35 154-199 8-42 (210)
9 PF01006 HCV_NS4a: Hepatitis C 30.9 16 0.00035 27.3 0.0 18 155-172 3-20 (56)
10 PF06422 PDR_CDR: CDR ABC tran 29.1 49 0.0011 26.5 2.5 26 154-179 52-77 (103)
11 TIGR01944 rnfB electron transp 23.6 48 0.001 28.4 1.5 25 154-178 6-30 (165)
12 PRK10234 DNA-binding transcrip 23.4 2.3E+02 0.0051 23.8 5.6 41 181-232 24-64 (118)
13 PF13708 Methyltransf_27: Meth 23.2 21 0.00046 31.5 -0.7 65 184-252 108-176 (194)
14 PF06039 Mqo: Malate:quinone o 22.9 20 0.00043 36.7 -1.0 48 154-220 5-52 (488)
15 PF15061 DUF4538: Domain of un 22.8 1.1E+02 0.0023 23.1 3.0 32 151-182 5-37 (58)
16 PRK14759 potassium-transportin 22.8 77 0.0017 20.9 2.0 18 156-173 6-23 (29)
17 PLN03181 glycosyltransferase; 22.6 15 0.00033 37.2 -1.8 68 152-220 31-119 (453)
18 PF14927 Neurensin: Neurensin 22.2 70 0.0015 27.7 2.3 31 172-202 79-109 (140)
19 PRK06752 single-stranded DNA-b 21.4 97 0.0021 24.8 2.8 38 202-249 68-105 (112)
20 PF00436 SSB: Single-strand bi 21.2 1.3E+02 0.0028 22.5 3.4 32 202-243 69-100 (104)
No 1
>PF08294 TIM21: TIM21; InterPro: IPR013261 TIM21 interacts with the outer mitochondrial TOM complex and promotes the insertion of proteins into the inner mitochondrial membrane [].; PDB: 2CIU_A.
Probab=100.00 E-value=8e-42 Score=288.04 Aligned_cols=116 Identities=35% Similarity=0.524 Sum_probs=59.2
Q ss_pred CceeeeecceeeeehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCCCceeecCCCC-cccccCc
Q 024673 142 KPVTFTEGASYSLIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGSPITGYGQESR-NRAARQR 220 (264)
Q Consensus 142 Kv~ratq~ssy~~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~pIkayGe~t~-nRwrRnr 220 (264)
|++|++++++|++|||+|+||+|+++|+|++|||+++|||++||+|+++|++||+|+++||+||+||||+++ +||+|+|
T Consensus 1 Kv~~~~~~~~~~~vil~G~gl~g~v~Y~l~sELFs~~s~~~ifn~A~~~i~~d~~v~~~LG~~ikayGe~~~~~Rw~R~R 80 (145)
T PF08294_consen 1 KVKRATKQTSYFGVILAGLGLTGLVIYALFSELFSPSSPTRIFNRAVDRIKKDPRVQDLLGEPIKAYGEETGRNRWRRNR 80 (145)
T ss_dssp -------------------------------------HHHHHHHHHHHHHHH-HHHHHHT----EEEE-EEE-SS-EEE-
T ss_pred ChheehcceeeeEeeeehHHHHHHhHHHHhHHHhCCCCchHHHHHHHHHHhcCHHHHHHhCCCeEEecCCCCCCcccccC
Confidence 899999999999999999999999999999999999999999999999999999999999999999999998 8999988
Q ss_pred -ccceEEECCCCceEEEEEEEEEE-----EEEEEEEecCC-Cce
Q 024673 221 -IPNRVYTDEFGIEHVEVNVCLAR-----MVLTEIRSRHL-CSF 257 (264)
Q Consensus 221 -Ias~~~~D~dG~EHmrMkF~VeG-----~V~lEm~k~~~-~~f 257 (264)
+.++.++|+||+|||+|+|||+| +||+||+|++. .+|
T Consensus 81 ~~~s~~~~d~~G~eh~~m~F~V~G~~~~G~V~~e~~k~~~~~~~ 124 (145)
T PF08294_consen 81 PIVSHREYDKDGREHMRMKFYVEGPRGKGVVHLEMVKDDGSGEY 124 (145)
T ss_dssp ---EEEEE-TTS-EEEEEEEEEE-SS-EEEEEEEEE--SS-SS-
T ss_pred CccceEEEcCCCCEEEEEEEEEEeCCCeEEEEEEEEECCCCCCe
Confidence 66667779999999999999995 99999999995 544
No 2
>KOG4836 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.6e-34 Score=255.05 Aligned_cols=114 Identities=31% Similarity=0.544 Sum_probs=108.3
Q ss_pred CCCceeeeecceeeeehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCCCceeecCCCCcccccC
Q 024673 140 PEKPVTFTEGASYSLIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGSPITGYGQESRNRAARQ 219 (264)
Q Consensus 140 ~EKv~ratq~ssy~~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~pIkayGe~t~nRwrRn 219 (264)
+.||++++.+++|+.+||+|+||+|+++|+|++|||+++||+.|||+||++|++||+|+.++|++||||||+++ |+||+
T Consensus 69 ~gkVke~s~nt~~~~iVI~GiGv~g~~iY~i~~ElFs~~sp~~ifn~Al~~v~~~~~~~~ifG~~iKgfGE~t~-rgRR~ 147 (215)
T KOG4836|consen 69 GGKVKEASSNTFYYIIVIAGIGVTGAFIYAIFGELFSSSSPQTIFNRALELVRANPEVQGIFGESIKGFGEETR-RGRRQ 147 (215)
T ss_pred ccchhhccccceeeeeeeeeccHHHHhHHHHHHHHhcCCCcHHHHHHHHHHHhcChHHhhHhhhhhhhhhhhhc-Ccccc
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999 78899
Q ss_pred cccceEEECCCCceEEEEEEEEEE-----EEEEEEEecCCC
Q 024673 220 RIPNRVYTDEFGIEHVEVNVCLAR-----MVLTEIRSRHLC 255 (264)
Q Consensus 220 rIas~~~~D~dG~EHmrMkF~VeG-----~V~lEm~k~~~~ 255 (264)
||+|..| |+||++||+|+|||+| +|++|+++.+..
T Consensus 148 hVa~~~y-dk~G~~h~~m~Fhv~g~~~~g~v~~~~k~~~g~ 187 (215)
T KOG4836|consen 148 HVAHHKY-DKDGMEHLRMQFHVEGSEPQGHVFARLKEVDGD 187 (215)
T ss_pred eeeeeee-ecCCceEEEEEEEEEcCCcccchhhhhhccCCC
Confidence 9999999 8999999999999996 899999887643
No 3
>PF08695 Coa1: Cytochrome oxidase complex assembly protein 1; InterPro: IPR014807 Coa1 is an inner mitochondrial membrane protein that associates with Shy1 and is required for cytochrome oxidase complex IV assembly. It contains a conserved hydrophobic segment (amino acids 74-92) with the potential to form a membrane-spanning helix. The N terminus of Coa1 is rich in positively charged amino acids and could form an amphipathic alpha helix, characteristic of a mitochondrial presequence. A cleavage site for the mitochondrial processing peptidase is predicted adjacent to the presequence. Upon in vitro import into mitochondria, Coa1 is processed to a mature form, indicating that it possesses a cleavable presequence []. The eukaryotic cytochrome oxidase complex consists of 12-13 subunits, with three mitochondrial encoded subunits, Cox1-Cox3, forming the core enzyme. Translation of the Cox1 transcript requires the two promoters, Pet309 and Mss51, and the latter has an additional role in translational elongation. Coa1 is necessary for linking the activity of Mss51 to Cox1 insertion into the assembly complex [].
Probab=98.12 E-value=2.5e-05 Score=62.47 Aligned_cols=81 Identities=20% Similarity=0.228 Sum_probs=58.3
Q ss_pred HHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCC--CceeecCCCCcccccCcccceEEECCCCceEEE
Q 024673 159 GLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGS--PITGYGQESRNRAARQRIPNRVYTDEFGIEHVE 236 (264)
Q Consensus 159 Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~--pIkayGe~t~nRwrRnrIas~~~~D~dG~EHmr 236 (264)
.+++++.++|.+-.++ ....+|..|++.++.||+++++||+ ||+...- ++.-+.-+. .| +..
T Consensus 7 ~~~~~~~~~~~~~~~~----~~s~~y~~al~~l~~~~~v~~~LGe~ipi~~~~~---------~i~G~~~~~-~g--~a~ 70 (116)
T PF08695_consen 7 VIGWGVFLFYAINSEK----KSSEYYKEALEQLRSNPEVVEALGENIPIKDGWP---------WISGSINTS-KG--RAD 70 (116)
T ss_pred eHHHHHHHHHHHHHHH----hcCHHHHHHHHHHHhCHHHHHHcCCCCCcccCcc---------cccceeecc-Cc--EEE
Confidence 3344445677777776 5557899999999999999999999 8876552 122222222 34 566
Q ss_pred EEEEEEE-----EEEEEEEecCCC
Q 024673 237 VNVCLAR-----MVLTEIRSRHLC 255 (264)
Q Consensus 237 MkF~VeG-----~V~lEm~k~~~~ 255 (264)
+.|-|+| ++|++..+....
T Consensus 71 ~~~pV~G~k~~G~v~~~a~r~~~~ 94 (116)
T PF08695_consen 71 LSFPVKGPKGKGTVYVEATRSGGK 94 (116)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCC
Confidence 9999995 899999988776
No 4
>COG3944 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]
Probab=68.36 E-value=4.8 Score=37.36 Aligned_cols=40 Identities=25% Similarity=0.395 Sum_probs=34.9
Q ss_pred eehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCCCc
Q 024673 154 LIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGSPI 205 (264)
Q Consensus 154 ~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~pI 205 (264)
.+|.+++||.|.+.++++.|++ =++||.-+++.+.||-|+
T Consensus 176 i~iaf~~Gl~~~igiafl~e~l------------D~tIKs~edie~~l~lPv 215 (226)
T COG3944 176 IVIAFLAGLAGAIGIAFLLEYL------------DKTIKSEEDIEEVLDLPV 215 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------------hhhcCCHHHHHHhhCCce
Confidence 4677889999999999999995 257999999999999994
No 5
>PF13850 ERGIC_N: Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)
Probab=64.42 E-value=17 Score=28.74 Aligned_cols=68 Identities=13% Similarity=0.093 Sum_probs=47.2
Q ss_pred eeecceeeeehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCCCceeecCCCCcccccCcccceE
Q 024673 146 FTEGASYSLIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGSPITGYGQESRNRAARQRIPNRV 225 (264)
Q Consensus 146 atq~ssy~~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~pIkayGe~t~nRwrRnrIas~~ 225 (264)
.++.+..+|+ +.+....++++++++|+. .+.+-.+.+..
T Consensus 15 ~~~~T~~Gg~--iSi~~~~~~~~L~~~E~~---------------------------------------~y~~~~~~~~~ 53 (96)
T PF13850_consen 15 LREKTSSGGI--ISIITIVLIVILFISELY---------------------------------------SYLSGEIKYQL 53 (96)
T ss_pred heeeccCChH--HHHHHHHHHHHHHHHHHH---------------------------------------HHcccceeEEE
Confidence 3555666664 344556678999999993 33333466677
Q ss_pred EECCCCceEEEEEEEEE------EEEEEEEEecCC
Q 024673 226 YTDEFGIEHVEVNVCLA------RMVLTEIRSRHL 254 (264)
Q Consensus 226 ~~D~dG~EHmrMkF~Ve------G~V~lEm~k~~~ 254 (264)
..|.+..+-|.++|.|. ...++++.....
T Consensus 54 ~VD~~~~~~l~in~ditf~~~pC~~l~vDv~D~~G 88 (96)
T PF13850_consen 54 VVDTSRDEKLQINFDITFPHMPCDFLSVDVQDASG 88 (96)
T ss_pred EEcCCCCceEEEEEEEEECCCccCeeeeEeEccCC
Confidence 78999999999999998 356777765544
No 6
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=58.22 E-value=4.4 Score=28.69 Aligned_cols=23 Identities=35% Similarity=0.703 Sum_probs=16.9
Q ss_pred cchHHHH---HhCCCceeecCCCCcc
Q 024673 193 DDGQVRV---RIGSPITGYGQESRNR 215 (264)
Q Consensus 193 ~Dprv~~---~LG~pIkayGe~t~nR 215 (264)
.|.+|+. .||+||+=|||....|
T Consensus 2 ~d~eV~~~LR~lgePi~lFGE~~~~R 27 (44)
T smart00500 2 PDSEVIRRLRELGEPITLFGEDDQER 27 (44)
T ss_pred CHHHHHHHHHHcCCCeeecCCChHHH
Confidence 3566644 4599999999987544
No 7
>PF08799 PRP4: pre-mRNA processing factor 4 (PRP4) like; InterPro: IPR014906 This small protein is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. ; PDB: 1MZW_B 2DK4_A.
Probab=41.02 E-value=6.1 Score=25.95 Aligned_cols=19 Identities=32% Similarity=0.615 Sum_probs=11.0
Q ss_pred HHHhCCCceeecCCCCccc
Q 024673 198 RVRIGSPITGYGQESRNRA 216 (264)
Q Consensus 198 ~~~LG~pIkayGe~t~nRw 216 (264)
...||+||+=|||...+|.
T Consensus 5 LR~lgePi~lFGE~~~~R~ 23 (30)
T PF08799_consen 5 LRELGEPITLFGETDADRR 23 (30)
T ss_dssp HHHCT--SCETT--HHHHH
T ss_pred HHhcCCChhhhCCChHHHH
Confidence 3568999999999876543
No 8
>PHA02669 hypothetical protein; Provisional
Probab=35.63 E-value=42 Score=30.47 Aligned_cols=35 Identities=31% Similarity=0.436 Sum_probs=23.0
Q ss_pred eehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHH
Q 024673 154 LIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRV 199 (264)
Q Consensus 154 ~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~ 199 (264)
+||++-+-|||.++|+|+ || .-|++|..+-.||++
T Consensus 8 ~iIvavi~LTgAaiYlLi-Ei----------GLAaERanKrsRvK~ 42 (210)
T PHA02669 8 GIIVAVIYLTGAAIYLLI-EI----------GLAAERANKRSRVKA 42 (210)
T ss_pred HHHHHHHHHHHHHHHHHH-HH----------HHHHHHhhhHHHHHH
Confidence 456666789999999886 44 345555555555544
No 9
>PF01006 HCV_NS4a: Hepatitis C virus non-structural protein NS4a; InterPro: IPR000745 NS4a (non-structural protein) forms an integral part of the NS3 serine protease in Hepatitis C virus, as it is required in a number of cases as a cofactor of cleavage [, ]. It has also been reported that NS4a interacts with NS4b and NS3 to form a multi-subunit replicase complex [].; GO: 0016032 viral reproduction, 0044423 virion part; PDB: 3M5M_C 2FM2_D 3KNX_D 2A4R_B 2F9V_B 2OBQ_B 2O8M_C 3KEE_F 3KF2_C 1NS3_D ....
Probab=30.94 E-value=16 Score=27.30 Aligned_cols=18 Identities=33% Similarity=0.453 Sum_probs=0.0
Q ss_pred ehhhHHHHHHHHHHhhhh
Q 024673 155 IILAGLGVAGAAAYAVFK 172 (264)
Q Consensus 155 VIL~Glgltg~v~Y~l~s 172 (264)
++++|++++++++|++.+
T Consensus 3 ~vlvGg~lAa~aay~~~t 20 (56)
T PF01006_consen 3 WVLVGGALAALAAYCLTT 20 (56)
T ss_dssp ------------------
T ss_pred EEEEhHHHHHHHHHHhcc
Confidence 578899999999998765
No 10
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=29.15 E-value=49 Score=26.48 Aligned_cols=26 Identities=19% Similarity=-0.017 Sum_probs=21.7
Q ss_pred eehhhHHHHHHHHHHhhhhhhccCCc
Q 024673 154 LIILAGLGVAGAAAYAVFKELIFEPK 179 (264)
Q Consensus 154 ~VIL~Glgltg~v~Y~l~sELFfs~S 179 (264)
..||+|+.+..+++++++.|++..+.
T Consensus 52 ~GIli~f~i~f~~~~~~~~e~~~~~~ 77 (103)
T PF06422_consen 52 FGILIAFWIFFIVLTLLATEFIKFEK 77 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 34688999999999999999976554
No 11
>TIGR01944 rnfB electron transport complex, RnfABCDGE type, B subunit. The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the B subunit.
Probab=23.57 E-value=48 Score=28.40 Aligned_cols=25 Identities=20% Similarity=0.109 Sum_probs=18.9
Q ss_pred eehhhHHHHHHHHHHhhhhhhccCC
Q 024673 154 LIILAGLGVAGAAAYAVFKELIFEP 178 (264)
Q Consensus 154 ~VIL~Glgltg~v~Y~l~sELFfs~ 178 (264)
++++.++|+..+++-++.+.+|.=.
T Consensus 6 ~~~~~~~g~~~~~~l~~~~~~~~ve 30 (165)
T TIGR01944 6 VAALSALGLALGAILGYAARRFPVE 30 (165)
T ss_pred HHHHHHHHHHHHHHHHHheeeeecc
Confidence 4566778888888888888887633
No 12
>PRK10234 DNA-binding transcriptional activator GutM; Provisional
Probab=23.42 E-value=2.3e+02 Score=23.79 Aligned_cols=41 Identities=24% Similarity=0.335 Sum_probs=27.6
Q ss_pred hHHHHHHHHHhhcchHHHHHhCCCceeecCCCCcccccCcccceEEECCCCc
Q 024673 181 YKIFNKALKRIQDDGQVRVRIGSPITGYGQESRNRAARQRIPNRVYTDEFGI 232 (264)
Q Consensus 181 t~iFnrAv~rIk~Dprv~~~LG~pIkayGe~t~nRwrRnrIas~~~~D~dG~ 232 (264)
-+.||++++.+++. |. -|+|...+ ||++.-|.= .-.|++|+
T Consensus 24 ik~Fn~~~~~L~~~-------G~--V~iGr~~g-rf~~g~Ivl-laiD~~~~ 64 (118)
T PRK10234 24 ISRFNRAFDTLCQQ-------GR--VGVGRSSG-RFKPRVVVA-LALDEQQR 64 (118)
T ss_pred HHHHHHHHHHHHhc-------Cc--eEEecccC-ccCCCeEEE-EEECCCCc
Confidence 48899999999885 43 57787766 665543332 33488775
No 13
>PF13708 Methyltransf_27: Methyltransferase domain
Probab=23.24 E-value=21 Score=31.50 Aligned_cols=65 Identities=12% Similarity=0.163 Sum_probs=39.7
Q ss_pred HHHHHHHhhcchHHHHHh-CCCceeecCCCCcccccCccc---ceEEECCCCceEEEEEEEEEEEEEEEEEec
Q 024673 184 FNKALKRIQDDGQVRVRI-GSPITGYGQESRNRAARQRIP---NRVYTDEFGIEHVEVNVCLARMVLTEIRSR 252 (264)
Q Consensus 184 FnrAv~rIk~Dprv~~~L-G~pIkayGe~t~nRwrRnrIa---s~~~~D~dG~EHmrMkF~VeG~V~lEm~k~ 252 (264)
|..+.+.+.+=.++..+| |.|+..++.....+ -..++. +... -.-+.+++++|-+|++|++++.+
T Consensus 108 ~~~~~~~l~DL~ri~~~ldGk~~~~~~~~~~~~-l~~~~~~~~~~~~---~e~~~f~vR~fkkGt~Hi~fk~~ 176 (194)
T PF13708_consen 108 YGWRRDKLDDLERILCLLDGKPIPDNRGDASAR-LSDAIRDNGEWQV---FEGDYFRVRYFKKGTAHITFKRP 176 (194)
T ss_pred CcccchHHHHHHHHHHHhCCCCCCCccccHHHH-HHHHHHhCCCcee---ecCCcEEEEEecCCcEEEEECCH
Confidence 345666777767777777 77877666543210 111111 2222 22356999999999999998544
No 14
>PF06039 Mqo: Malate:quinone oxidoreductase (Mqo); InterPro: IPR006231 The membrane-associated enzyme, malate:quinone-oxidoreductase, is an alternative to the better-known NAD-dependent malate dehydrogenase as part of the TCA cycle. The reduction of a quinone rather than NAD+ makes the reaction essentially irreversible in the direction of malate oxidation to oxaloacetate. Both forms of malate dehydrogenase are active in Escherichia coli; disruption of this form causes less phenotypic change. In some bacteria, this form is the only or the more important malate dehydrogenase []. ; GO: 0008924 malate dehydrogenase (quinone) activity, 0006099 tricarboxylic acid cycle, 0055114 oxidation-reduction process
Probab=22.85 E-value=20 Score=36.75 Aligned_cols=48 Identities=23% Similarity=0.224 Sum_probs=33.3
Q ss_pred eehhhHHHHHHHHHHhhhhhhccCCchhHHHHHHHHHhhcchHHHHHhCCCceeecCCCCcccccCc
Q 024673 154 LIILAGLGVAGAAAYAVFKELIFEPKEYKIFNKALKRIQDDGQVRVRIGSPITGYGQESRNRAARQR 220 (264)
Q Consensus 154 ~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG~pIkayGe~t~nRwrRnr 220 (264)
=|||+|.|+++..+-++++|| +|...-.+=|.+.+.+.++++-|-...
T Consensus 5 DVvLIGgGImsaTL~~~L~~l-------------------~p~~~I~i~Erl~~~A~ESS~~wNNAG 52 (488)
T PF06039_consen 5 DVVLIGGGIMSATLGYLLKEL-------------------EPDWSIAIFERLDSVALESSNAWNNAG 52 (488)
T ss_pred eEEEECchHHHHHHHHHHHHh-------------------CCCCeEEEEEecCcchhhcCCCccccc
Confidence 378899999999999999999 333333444455666666666555444
No 15
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=22.81 E-value=1.1e+02 Score=23.14 Aligned_cols=32 Identities=31% Similarity=0.663 Sum_probs=21.9
Q ss_pred eeeeehhhH-HHHHHHHHHhhhhhhccCCchhH
Q 024673 151 SYSLIILAG-LGVAGAAAYAVFKELIFEPKEYK 182 (264)
Q Consensus 151 sy~~VIL~G-lgltg~v~Y~l~sELFfs~Spt~ 182 (264)
....+|+.| +|+.|+.+|-++-.=..-+.+++
T Consensus 5 ~r~~~~~ggfVg~iG~a~Ypi~~~Pmm~~eeYk 37 (58)
T PF15061_consen 5 WRYALFVGGFVGLIGAALYPIYFRPMMNPEEYK 37 (58)
T ss_pred ccchhhHHHHHHHHHHHHhhhhcccccChHHHH
Confidence 345677777 58889999988755445555554
No 16
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=22.76 E-value=77 Score=20.90 Aligned_cols=18 Identities=28% Similarity=0.305 Sum_probs=11.4
Q ss_pred hhhHHHHHHHHHHhhhhh
Q 024673 156 ILAGLGVAGAAAYAVFKE 173 (264)
Q Consensus 156 IL~Glgltg~v~Y~l~sE 173 (264)
+++|+...++++|+++-=
T Consensus 6 ~l~~~va~~L~vYL~~AL 23 (29)
T PRK14759 6 SLAGAVSLGLLIYLTYAL 23 (29)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566666666777766543
No 17
>PLN03181 glycosyltransferase; Provisional
Probab=22.63 E-value=15 Score=37.16 Aligned_cols=68 Identities=18% Similarity=0.193 Sum_probs=42.0
Q ss_pred eeeehhhHHHHHHHHHHhhhhhhccCCchhHHHHH----H-----------------HHHhhcchHHHHHhCCCceeecC
Q 024673 152 YSLIILAGLGVAGAAAYAVFKELIFEPKEYKIFNK----A-----------------LKRIQDDGQVRVRIGSPITGYGQ 210 (264)
Q Consensus 152 y~~VIL~Glgltg~v~Y~l~sELFfs~Spt~iFnr----A-----------------v~rIk~Dprv~~~LG~pIkayGe 210 (264)
...+.++|+.++.+++|.+.+=+-..|+++..|+- + -.-..+||++.--||.+|+.+-+
T Consensus 31 ~~~~f~~ga~~a~ll~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~dp~~~ytl~~~i~~wD~ 110 (453)
T PLN03181 31 DGVLFLGGAVVAFLLVWSLASILSPSPNPSLVSSSTNARASSCPVAGSGVNLGYDPPDPTFYDDPDLSYSIEKPIKNWDE 110 (453)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhcCCCCCCCccccccccccccccccCCccccCCCCCCcccccCCCCceecCCCcCCHHH
Confidence 45677788999999999999843223333333332 1 11234577777888888888766
Q ss_pred CCCcccccCc
Q 024673 211 ESRNRAARQR 220 (264)
Q Consensus 211 ~t~nRwrRnr 220 (264)
... .|-+.|
T Consensus 111 kR~-~Wl~~~ 119 (453)
T PLN03181 111 KRA-EWLKLH 119 (453)
T ss_pred HHH-HHHHhC
Confidence 433 444443
No 18
>PF14927 Neurensin: Neurensin
Probab=22.15 E-value=70 Score=27.73 Aligned_cols=31 Identities=23% Similarity=0.337 Sum_probs=21.7
Q ss_pred hhhccCCchhHHHHHHHHHhhcchHHHHHhC
Q 024673 172 KELIFEPKEYKIFNKALKRIQDDGQVRVRIG 202 (264)
Q Consensus 172 sELFfs~Spt~iFnrAv~rIk~Dprv~~~LG 202 (264)
.|+..-++....||+++++|+----+.--||
T Consensus 79 ~~~~~vD~~a~~~n~~Ld~c~laG~~L~~lG 109 (140)
T PF14927_consen 79 GEFVVVDSQAARFNNALDTCKLAGLILLCLG 109 (140)
T ss_pred ccccccchHHHHHhhhHHHHHHHHHHHHHHH
Confidence 3444445568899999999987666665555
No 19
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=21.38 E-value=97 Score=24.77 Aligned_cols=38 Identities=26% Similarity=0.342 Sum_probs=27.0
Q ss_pred CCCceeecCCCCcccccCcccceEEECCCCceEEEEEEEEEEEEEEEE
Q 024673 202 GSPITGYGQESRNRAARQRIPNRVYTDEFGIEHVEVNVCLARMVLTEI 249 (264)
Q Consensus 202 G~pIkayGe~t~nRwrRnrIas~~~~D~dG~EHmrMkF~VeG~V~lEm 249 (264)
|++|---|+ +.+..|.|+||.++..+.+.++-+-.|+-
T Consensus 68 G~~V~V~G~----------l~~~~~~~~~G~~~~~~ei~a~~i~~l~~ 105 (112)
T PRK06752 68 GSLVGITGR----------IHTRNYEDDQGKRIYITEVVIESITFLER 105 (112)
T ss_pred CCEEEEEEE----------EEeCccCCCCCcEEEEEEEEEEEEEECCC
Confidence 666655554 44557889999999999998885544443
No 20
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=21.18 E-value=1.3e+02 Score=22.54 Aligned_cols=32 Identities=22% Similarity=0.383 Sum_probs=23.5
Q ss_pred CCCceeecCCCCcccccCcccceEEECCCCceEEEEEEEEEE
Q 024673 202 GSPITGYGQESRNRAARQRIPNRVYTDEFGIEHVEVNVCLAR 243 (264)
Q Consensus 202 G~pIkayGe~t~nRwrRnrIas~~~~D~dG~EHmrMkF~VeG 243 (264)
|++|.-.|. +....|.|+||.++..+.+.++-
T Consensus 69 G~~V~V~G~----------l~~~~~~~~~G~~~~~~~i~a~~ 100 (104)
T PF00436_consen 69 GDRVYVEGR----------LRTRTYEDKDGQKRYRVEIIADN 100 (104)
T ss_dssp T-EEEEEEE----------EEEEEEESTTSSEEEEEEEEEEE
T ss_pred CCEEEEEEE----------EEeeEEECCCCCEEEEEEEEEEE
Confidence 666666664 34458889999999999988873
Done!