Query T0608 ZP_02041710.1, Ruminococcus gnavus, 279 residues
Match_columns 279
No_of_seqs 132 out of 1949
Neff 8.5
Searched_HMMs 11830
Date Mon Jul 5 09:12:44 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0608.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0608.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01551 Peptidase_M23: Peptid 99.8 4.6E-21 3.9E-25 196.1 8.3 96 150-261 1-96 (96)
2 PF00358 PTS_EIIA_1: phosphoen 95.9 0.0056 4.7E-07 40.1 5.3 90 128-227 7-106 (132)
3 PF01333 Apocytochr_F_C: Apocy 92.1 0.082 7E-06 30.1 4.5 73 168-251 4-79 (118)
4 PF06898 YqfD: Putative stage 76.3 1.3 0.00011 19.6 4.1 43 168-232 191-235 (385)
5 PF00364 Biotin_lipoyl: Biotin 70.7 0.81 6.9E-05 21.5 1.9 16 210-225 58-73 (74)
6 PF02666 PS_Dcarbxylase: Phosp 65.0 2.6 0.00022 17.1 6.9 61 169-229 85-174 (203)
7 PF07831 PYNP_C: Pyrimidine nu 64.6 0.89 7.5E-05 21.1 1.1 29 191-228 27-55 (75)
8 PF06312 Neurexophilin: Neurex 60.1 2.5 0.00021 17.2 2.7 38 152-206 66-104 (219)
9 PF11886 DUF3406: Domain of un 53.4 3 0.00025 16.6 2.2 62 210-275 149-216 (273)
10 PF10921 DUF2710: Protein of u 51.2 4.2 0.00036 15.3 3.2 38 153-205 42-79 (109)
11 PF02749 QRPTase_N: Quinolinat 43.3 5 0.00042 14.7 2.0 18 209-226 49-66 (88)
12 PF05259 Herpes_UL1: Herpesvir 43.1 4.8 0.0004 14.9 1.9 28 244-271 54-81 (104)
13 PF10011 DUF2254: Predicted me 42.9 4.8 0.00041 14.8 1.9 50 168-228 197-246 (371)
14 PF09949 DUF2183: Uncharacteri 38.8 6.2 0.00053 13.9 3.7 35 241-279 62-98 (100)
15 PF01016 Ribosomal_L27: Riboso 38.3 4.9 0.00042 14.7 1.3 30 149-182 42-71 (81)
16 PF00313 CSD: 'Cold-shock' DNA 31.0 8 0.00068 12.9 2.1 45 174-223 3-48 (67)
17 PF07232 DUF1424: Putative rep 30.4 8.2 0.00069 12.8 2.2 10 243-252 164-173 (328)
18 PF09251 PhageP22-tail: Salmon 30.2 8.3 0.0007 12.8 1.9 77 169-250 185-268 (551)
19 PF09891 DUF2118: Uncharacteri 28.5 8 0.00068 12.9 1.1 17 211-227 96-112 (150)
20 PF01076 Mob_Pre: Plasmid reco 27.7 9 0.00076 12.5 1.5 12 196-207 118-129 (196)
21 PF04952 AstE_AspA: Succinylgl 26.5 9.4 0.00079 12.3 1.9 20 210-229 234-255 (292)
22 PF00120 Gln-synt_C: Glutamine 24.8 6.2 0.00052 13.9 -0.0 21 241-265 231-251 (258)
23 PF07126 DUF1379: Protein of u 23.7 10 0.00088 11.9 6.3 59 169-228 84-142 (153)
24 PF11382 DUF3186: Protein of u 23.5 11 0.00089 11.9 8.7 25 1-25 4-28 (308)
25 PF01597 GCV_H: Glycine cleava 23.4 11 0.00089 11.9 1.9 21 212-232 40-60 (121)
26 PF04270 Strep_his_triad: Stre 21.5 11 0.00096 11.6 0.9 17 187-203 19-35 (53)
27 PF11853 DUF3373: Protein of u 20.7 12 0.001 11.5 4.1 17 32-48 30-46 (489)
No 1
>PF01551 Peptidase_M23: Peptidase family M23; InterPro: IPR016047 Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins such as Swiss:P33648 for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.; PDB: 2b44_B 2b0p_A 2b13_A 1qwy_A 2gu1_A 2hsi_A.
Probab=99.83 E-value=4.6e-21 Score=196.09 Aligned_cols=96 Identities=38% Similarity=0.504 Sum_probs=90.4
Q ss_pred CCCCCEEECCCCCCCCCCCEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCEEECCCEEEEEECC
Q ss_conf 44420470266798888877876786899975238983599998089769997512665524688786067268743065
Q T0608 150 RGHEGTDIMAEKNTPGYYPVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGDS 229 (279)
Q Consensus 150 ~~H~GiDiaa~~GT~~~~PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~~i~~V~~G~~V~~Ge~IG~vG~T 229 (279)
++|.|+||+++.|+ ||+|+++|+|+++++..++|++|+|+|++|+.++|+||+++ .|++||.|++||+||.+|+|
T Consensus 1 r~H~Gidi~~~~g~----~V~A~~~G~V~~~~~~~~~g~~V~i~h~~~~~~~Y~hl~~~-~v~~G~~V~~G~~IG~~g~~ 75 (96)
T PF01551_consen 1 RFHNGIDIAAPAGT----PVYAPADGTVVFVGNDPGYGNVVIIDHGDGYYTVYGHLDEV-SVKVGDRVKAGQPIGTVGNS 75 (96)
T ss_dssp --EE-EEEE--TT-----EEE-S----EEEEE--S----EEEEE-TTSEEEEEES-SCE--S----------EEEE----
T ss_pred CCCEEEEECCCCCC----EEECCEEEEEEEEEECCCCCEEEEEEECCCCEEEEEECCCC-CHHHHHHHCCCCEEEEECCC
T ss_conf 98078996879999----99938839999999879977899999899988999402255-20111122079989990467
Q ss_pred CCCCCCCCCCCCCCEEEEEEECCCCCCCCCCH
Q ss_conf 34467777888972258999817888632170
Q T0608 230 GYGEEGTTGEFPVHLHLGIYLKEGTEEISVNP 261 (279)
Q Consensus 230 G~st~~~~~~~g~HLHfei~~~~~~~~~~vnP 261 (279)
|.++ +|||||||+.++ .+|||
T Consensus 76 ~~~~-------~~hLHfev~~~g----~~vdP 96 (96)
T PF01551_consen 76 GNST-------GPHLHFEVRKNG----KPVDP 96 (96)
T ss_dssp ---S-------SSEEEEEEEETT----EEE-H
T ss_pred CCCC-------CCEEEEEEEECC----EECCC
T ss_conf 9989-------969999999999----98877
No 2
>PF00358 PTS_EIIA_1: phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1; InterPro: IPR001127 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) , is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC . These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose , , , . ; GO: 0005351 sugar:hydrogen ion symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 2gpr_A 1glb_F 1glc_F 1gla_F 2f3g_A 1f3z_A 1ggr_A 1gle_F 1gld_F 1f3g_A ....
Probab=95.91 E-value=0.0056 Score=40.13 Aligned_cols=90 Identities=24% Similarity=0.281 Sum_probs=59.3
Q ss_pred CCCCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECC-
Q ss_conf 7775327856788778766874444204702667988888778767868999752389835999980897699975126-
Q T0608 128 DDTEDKISYVDSWMFERNYGGKRGHEGTDIMAEKNTPGYYPVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLD- 206 (279)
Q Consensus 128 ~p~~g~iss~fg~r~~p~~g~~~~H~GiDiaa~~GT~~~~PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~- 206 (279)
-|..|.+. +...-.+|.+..+-.=.|+-|....|. |+|+.||+|...- ..+..+.|...+|.. +.-|+.
T Consensus 7 aP~~G~vi-~l~~v~D~vFs~k~lG~G~aI~P~~~~-----v~AP~dG~v~~i~---~T~HAi~i~~~~G~e-iLiHiGi 76 (132)
T PF00358_consen 7 APVSGKVI-PLEEVPDPVFSQKMLGDGVAIIPSDGK-----VYAPVDGTVTMIF---PTKHAIGIKTDNGVE-ILIHIGI 76 (132)
T ss_dssp -S----EE--GGGSSSCCCHTT------EE--SSSE-----EE-S-------B----TTSSEEEEE-----E-EEEE---
T ss_pred EECCCEEE-EHHHCCCHHHCCCCCCCEEEEEECCCE-----EECCCCEEEEEEC---CCCCEEEEEECCCCE-EEEEEEE
T ss_conf 30675799-813588858714674372999728782-----9884687999994---799899999689989-9999824
Q ss_pred --------CC-CCCCCCCEEECCCEEEEEE
Q ss_conf --------65-5246887860672687430
Q T0608 207 --------SY-AELEKGDPVKAGDLLGYMG 227 (279)
Q Consensus 207 --------~i-~~V~~G~~V~~Ge~IG~vG 227 (279)
-+ ..|++||.|++||.|..+=
T Consensus 77 dTv~L~g~gF~~~v~~Gd~V~~G~~L~~~D 106 (132)
T PF00358_consen 77 DTVNLNGEGFKVLVKEGDQVKAGDPLVEFD 106 (132)
T ss_dssp -GGGG-----EESS-TT-------EEEE--
T ss_pred CHHHCCCCEEEEEECCCCEECCCCEEEEEC
T ss_conf 253049954789975899998999999984
No 3
>PF01333 Apocytochr_F_C: Apocytochrome F, C-terminal; InterPro: IPR002325 The cytochrome b6f integral membrane protein complex transfers electrons between the two reaction centre complexes of oxygenic photosynthetic membranes, and participates in formation of the transmembrane electrochemical proton gradient by also transferring protons from the stromal to the internal lumen compartment . The cytochrome b6f complex contains four polypeptides: cytochrome f (285 aa); cytochrome b6 (215 aa); Rieske iron-sulphur protein (179 aa); and subunit IV (160 aa) . In its structure and functions, the cytochrome b6f complex bears extensive analogy to the cytochrome bc1 complex of mitochondria and photosynthetic purple bacteria; cytochrome f (cyt f) plays a role analogous to that of cytochrome c1, in spite of their different structures . The 3D structure of Brassica rapa (Turnip) cyt f has been determined . The lumen-side segment of cyt f includes two structural domains: a small one above a larger one that, in turn, is on top of the attachment to the membrane domain. The large domain consists of an anti-parallel beta-sandwich and a short haem-binding peptide, which form a three-layer structure. The small domain is inserted between beta-strands F and G of the large domain and is an all-beta domain. The haem nestles between two short helices at the N-terminus of cyt f. Within the second helix is the sequence motif for the c-type cytochromes, CxxCH (residues 21-25), which is covalently attached to the haem through thioether bonds to Cys-21 and Cys-24. His-25 is the fifth haem iron ligand. The sixth haem iron ligand is the alpha-amino group of Tyr-1 in the first helix . Cyt f has an internal network of water molecules that may function as a proton wire . The water chain appears to be a conserved feature of cyt f.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0006118 electron transport, 0015979 photosynthesis, 0031361 integral to thylakoid membrane; PDB: 1tkw_B 1hcz_A 1ctm_A 2pcf_B 2jxm_B 1ci3_M 1vf5_P 2e74_C 2e75_C 2d2c_P ....
Probab=92.10 E-value=0.082 Score=30.06 Aligned_cols=73 Identities=22% Similarity=0.211 Sum_probs=52.9
Q ss_pred CEEECCCCEEEEEEECCCCCEEEEEEECCCEE---EEEEECCCCCCCCCCCEEECCCEEEEEECCCCCCCCCCCCCCCCE
Q ss_conf 77876786899975238983599998089769---997512665524688786067268743065344677778889722
Q T0608 168 PVVSMTDGVVTEKGWLEKGGWRIGITAPTGAY---FYYAHLDSYAELEKGDPVKAGDLLGYMGDSGYGEEGTTGEFPVHL 244 (279)
Q Consensus 168 PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~---T~Y~HL~~i~~V~~G~~V~~Ge~IG~vG~TG~st~~~~~~~g~HL 244 (279)
..-|.+.|+|.........|+.|.|+-.+|-. ++=+.. ++ .|++||.|++||.+-.==|-|-.- ..
T Consensus 4 v~~As~~G~I~~I~~~e~ggy~vtI~~~dG~~v~~~IP~Gp-eL-iVseG~~v~~dqpLTnnPNVGGFG---------Q~ 72 (118)
T PF01333_consen 4 VYNASAAGTISKITRKEKGGYEVTIDTSDGRTVVDTIPPGP-EL-IVSEGDSVKADQPLTNNPNVGGFG---------QG 72 (118)
T ss_dssp --B-S----EEEEEEET-EEEEEEEESTTTEEEEEEEE-----B-S--------TT-BSB-------------------E
T ss_pred EECCCCCEEEEEEEECCCCCEEEEEECCCCCEEEEEECCCC-EE-EEECCCEEECCCCCCCCCCCCCCC---------CC
T ss_conf 56066874898888668984899998589989988508998-68-983698996698655799866767---------66
Q ss_pred EEEEEEC
Q ss_conf 5899981
Q T0608 245 HLGIYLK 251 (279)
Q Consensus 245 Hfei~~~ 251 (279)
--||-++
T Consensus 73 d~EIVLQ 79 (118)
T PF01333_consen 73 DTEIVLQ 79 (118)
T ss_dssp EEEEEE-
T ss_pred CEEEEEC
T ss_conf 2599970
No 4
>PF06898 YqfD: Putative stage IV sporulation protein YqfD; InterPro: IPR010690 This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis (P54469 from SWISSPROT) is known to be essential for efficient sporulation although its exact function is unknown .
Probab=76.29 E-value=1.3 Score=19.59 Aligned_cols=43 Identities=35% Similarity=0.568 Sum_probs=29.9
Q ss_pred CEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCEEECCCEE--EEEECCCCC
Q ss_conf 77876786899975238983599998089769997512665524688786067268--743065344
Q T0608 168 PVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLL--GYMGDSGYG 232 (279)
Q Consensus 168 PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~~i~~V~~G~~V~~Ge~I--G~vG~TG~s 232 (279)
.|+|..||+|... ++.+| . +.|++||.|++||++ |.+|..|..
T Consensus 191 ~iVA~k~GvI~~i----------~v~~G-----------~-p~Vk~GD~VkkGdiLIsG~i~~~~~~ 235 (385)
T PF06898_consen 191 NIVAKKDGVITRI----------IVRSG-----------T-PVVKVGDTVKKGDILISGIIGIEGDE 235 (385)
T ss_pred CEEECCCCEEEEE----------EECCC-----------E-EEECCCCEECCCCEEEEEEECCCCCC
T ss_conf 6699999799999----------96676-----------4-77367999878989995147578885
No 5
>PF00364 Biotin_lipoyl: Biotin-requiring enzyme; InterPro: IPR000089 The biotin / lipoyl attachment domain has a conserved lysine residue that binds biotin or lipoic acid. Biotin plays a catalytic role in some carboxyl transfer reactions and is covalently attached, via an amide bond, to a lysine residue in enzymes requiring this coenzyme . E2 acyltransferases have an essential cofactor, lipoic acid, which is covalently bound via an amide linkage to a lysine group . The lipoic acid cofactor is found in a variety of proteins that include, H-protein of the glycine cleavage system (GCS), mammalian and yeast pyruvate dehydrogenases and fast migrating protein (FMP) (gene acoC) from Alcaligenes eutrophus.; PDB: 1dcz_A 1dd2_A 1o78_A 2jku_A 1z6h_A 1z7t_A 2b8g_A 2b8f_A 2qf7_A 3bg3_A ....
Probab=70.67 E-value=0.81 Score=21.49 Aligned_cols=16 Identities=38% Similarity=0.561 Sum_probs=11.0
Q ss_pred CCCCCCEEECCCEEEE
Q ss_conf 2468878606726874
Q T0608 210 ELEKGDPVKAGDLLGY 225 (279)
Q Consensus 210 ~V~~G~~V~~Ge~IG~ 225 (279)
.++.||.|..||+|+.
T Consensus 58 ~v~~G~~V~~G~~l~~ 73 (74)
T PF00364_consen 58 LVEEGDTVEVGQPLAE 73 (74)
T ss_dssp SS-SCSEE-TTCEEEE
T ss_pred EECCCCEECCCCEEEE
T ss_conf 7789899899999997
No 6
>PF02666 PS_Dcarbxylase: Phosphatidylserine decarboxylase; InterPro: IPR003817 Phosphatidylserine decarboxylase plays a pivotal role in the synthesis of phospholipid by the mitochondria. The substrate phosphatidylserine is synthesized extramitochondrially and must be translocated to the mitochondria prior to decarboxylation . Phosphatidylserine decarboxylases 4.1.1.65 from EC is responsible for conversion of phosphatidylserine to phosphatidylethanolamine and plays a central role in the biosynthesis of aminophospholipids .; GO: 0004609 phosphatidylserine decarboxylase activity, 0008654 phospholipid biosynthetic process
Probab=65.04 E-value=2.6 Score=17.08 Aligned_cols=61 Identities=28% Similarity=0.379 Sum_probs=36.2
Q ss_pred EEECCCCEEEEEEECCCC--------------------CEEEEEEECCCEEEEE--EEC--CCC-CCC--CCCCEEECCC
Q ss_conf 787678689997523898--------------------3599998089769997--512--665-524--6887860672
Q T0608 169 VVSMTDGVVTEKGWLEKG--------------------GWRIGITAPTGAYFYY--AHL--DSY-AEL--EKGDPVKAGD 221 (279)
Q Consensus 169 V~A~~dG~V~~a~~~~~y--------------------Gn~ViI~Hg~G~~T~Y--~HL--~~i-~~V--~~G~~V~~Ge 221 (279)
..|+.+|+|....+..|. =.++.|+...|...+= |-+ .+| ..+ ++|+.|++||
T Consensus 85 ~haPv~G~v~~~~~i~G~~~~v~~~~~~~~~~~~~~NeR~v~~i~~~~G~v~~v~Vga~~V~~I~~~~~~~~g~~v~kGe 164 (203)
T PF02666_consen 85 FHAPVDGTVEEIKYIPGDLYPVNPSALSRIPDLFAENERVVIVIETKFGKVAVVQVGALNVGSIVLTFDPKPGQRVKKGE 164 (203)
T ss_pred EECCCCCEEEEEEEECCCEECCCHHHHCCCCCCEEEEEEEEEEEEECCCEEEEEEECHHHCCEEEEEEECCCCCEECCCC
T ss_conf 97168859999999799306429789604667347988999999969972999996342134599998707898982476
Q ss_pred EEEEE--ECC
Q ss_conf 68743--065
Q T0608 222 LLGYM--GDS 229 (279)
Q Consensus 222 ~IG~v--G~T 229 (279)
-||+- |||
T Consensus 165 e~G~F~fGSt 174 (203)
T PF02666_consen 165 ELGYFRFGST 174 (203)
T ss_pred EEEEECCCCE
T ss_conf 9638716985
No 7
>PF07831 PYNP_C: Pyrimidine nucleoside phosphorylase C-terminal domain; InterPro: IPR013102 This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases , . It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside phosphorylase (PYNP, P77826 from SWISSPROT) there is an added three-stranded anti-parallel beta sheet as compared to other members of the family, such as E. coli thymidine phosphorylase (TP, P07650 from SWISSPROT) . The domain contains an alpha/ beta hammerhead fold and residues in this domain seem to be important in formation of the homodimer . ; GO: 0016763 transferase activity, transferring pentosyl groups, 0006213 pyrimidine nucleoside metabolic process; PDB: 2dsj_B 1azy_B 1otp_A 2tpt_A 2j0f_A 1uou_A 3h5q_A 1brw_A.
Probab=64.58 E-value=0.89 Score=21.14 Aligned_cols=29 Identities=31% Similarity=0.417 Sum_probs=20.5
Q ss_pred EEEECCCEEEEEEECCCCCCCCCCCEEECCCEEEEEEC
Q ss_conf 99808976999751266552468878606726874306
Q T0608 191 GITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGD 228 (279)
Q Consensus 191 iI~Hg~G~~T~Y~HL~~i~~V~~G~~V~~Ge~IG~vG~ 228 (279)
.|||+-|+ .+ .++.||.|++||+|..+=.
T Consensus 27 ~iD~~vGi--------~l-~~k~Gd~V~~G~~l~~iha 55 (75)
T PF07831_consen 27 PIDPSVGI--------EL-HKKVGDKVKKGDPLATIHA 55 (75)
T ss_dssp ---TT-----------EE-SS----------EEEEEEE
T ss_pred CCCCCCCE--------EE-ECCCCCEECCCCEEEEEEC
T ss_conf 75826586--------87-2459199679996999984
No 8
>PF06312 Neurexophilin: Neurexophilin; InterPro: IPR010450 This family consists of mammalian neurexophilin proteins. Mammalian brains contain four different neurexophilin proteins. Neurexophilins form a family of related glycoproteins that are proteolytically processed after synthesis and bind to alpha-neurexins. The structure and characteristics of neurexophilins indicate that they function as neuropeptides that may signal via alpha-neurexins .
Probab=60.10 E-value=2.5 Score=17.22 Aligned_cols=38 Identities=21% Similarity=0.156 Sum_probs=25.2
Q ss_pred CCC-EEECCCCCCCCCCCEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECC
Q ss_conf 420-4702667988888778767868999752389835999980897699975126
Q T0608 152 HEG-TDIMAEKNTPGYYPVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLD 206 (279)
Q Consensus 152 H~G-iDiaa~~GT~~~~PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~ 206 (279)
..| =||.|..-|. ++.|.+.|+| .||+||.+|++=-|.
T Consensus 66 ~yG~GDFrAri~s~---~l~as~aG~V--------------tDH~NGTYtv~F~L~ 104 (219)
T PF06312_consen 66 TYGWGDFRARIFSV---KLQASAAGKV--------------TDHGNGTYTVQFRLL 104 (219)
T ss_pred CCCCCCCEEEECCC---CCCCCCCEEE--------------EECCCCEEEEEEECC
T ss_conf 00687507896146---7556575068--------------876998399998741
No 9
>PF11886 DUF3406: Domain of unknown function (DUF3406)
Probab=53.44 E-value=3 Score=16.61 Aligned_cols=62 Identities=11% Similarity=0.218 Sum_probs=44.5
Q ss_pred CCCCCCEEECCCEEEEEECCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCH------HHHHHHHHCCCEEE
Q ss_conf 2468878606726874306534467777888972258999817888632170------89998862287677
Q T0608 210 ELEKGDPVKAGDLLGYMGDSGYGEEGTTGEFPVHLHLGIYLKEGTEEISVNP------YPVLRYAENARIKC 275 (279)
Q Consensus 210 ~V~~G~~V~~Ge~IG~vG~TG~st~~~~~~~g~HLHfei~~~~~~~~~~vnP------~~~l~~~~~~~~~~ 275 (279)
-+|.-|++.-|.-+.+|+|+|..+. .+..-----+|+.++++. .||++ +++|+|...--+-|
T Consensus 149 G~KlED~i~vgkrl~lv~s~Gam~~--~gd~AYGgnlEa~lr~kd--yPi~~~~stlglS~~~w~~dlalg~ 216 (273)
T PF11886_consen 149 GVKLEDQISVGKRLKLVVSAGAMRG--RGDVAYGGNLEATLRGKD--YPIGQDQSTLGLSLMKWHGDLALGA 216 (273)
T ss_pred EEEEEEEEEECCCEEEEEECCEEEC--CCCEEECCEEEEEEECCC--CCCCCCCCCEEEEEEECCCCEEEEC
T ss_conf 6555447875363899996444531--685230342689961576--7877874300134330055616512
No 10
>PF10921 DUF2710: Protein of unknown function (DUF2710)
Probab=51.19 E-value=4.2 Score=15.31 Aligned_cols=38 Identities=24% Similarity=0.351 Sum_probs=26.0
Q ss_pred CCEEECCCCCCCCCCCEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEEC
Q ss_conf 20470266798888877876786899975238983599998089769997512
Q T0608 153 EGTDIMAEKNTPGYYPVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHL 205 (279)
Q Consensus 153 ~GiDiaa~~GT~~~~PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL 205 (279)
.|||+.+..|. |+|++ ..-|....+.-..|.+|.|+|-
T Consensus 42 e~vtysvdlGd-----V~ava----------NsdGrLl~LtLhpGvmTgY~Hg 79 (109)
T PF10921_consen 42 EGVTYSVDLGD-----VVAVA----------NSDGRLLSLTLHPGVMTGYTHG 79 (109)
T ss_pred HCEEEECCCCC-----EEEEE----------CCCCCEEEEEECCCEECCCCCC
T ss_conf 06147615774-----79985----------2788577777458701264530
No 11
>PF02749 QRPTase_N: Quinolinate phosphoribosyl transferase, N-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg^2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide , . Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 2b7p_C 2b7n_C 2b7q_A 1o4u_A 3gnn_A 1qap_B 2i14_D 3c2e_A 3c2v_A 3c2r_A ....
Probab=43.27 E-value=5 Score=14.68 Aligned_cols=18 Identities=33% Similarity=0.567 Sum_probs=15.5
Q ss_pred CCCCCCCEEECCCEEEEE
Q ss_conf 524688786067268743
Q T0608 209 AELEKGDPVKAGDLLGYM 226 (279)
Q Consensus 209 ~~V~~G~~V~~Ge~IG~v 226 (279)
..++.|+.|++|++|..+
T Consensus 49 ~~~~dG~~v~~g~~i~~i 66 (88)
T PF02749_consen 49 WLVKDGDRVKPGDVIAEI 66 (88)
T ss_dssp ESS-TT-EE-TTSEEEEE
T ss_pred EECCCCCEECCCCEEEEE
T ss_conf 986989990799999999
No 12
>PF05259 Herpes_UL1: Herpesvirus glycoprotein L; InterPro: IPR007923 This family consists of several herpesvirus glycoprotein L or UL1 proteins. Glycoprotein L is known to form a complex with glycoprotein H but the function of this complex is poorly understood .
Probab=43.13 E-value=4.8 Score=14.88 Aligned_cols=28 Identities=14% Similarity=0.250 Sum_probs=19.6
Q ss_pred EEEEEEECCCCCCCCCCHHHHHHHHHCC
Q ss_conf 2589998178886321708999886228
Q T0608 244 LHLGIYLKEGTEEISVNPYPVLRYAENA 271 (279)
Q Consensus 244 LHfei~~~~~~~~~~vnP~~~l~~~~~~ 271 (279)
+-+=+|++...-..|||||-+++=+-++
T Consensus 54 pE~ILWy~~~~~AywVNP~~~~~gl~ed 81 (104)
T PF05259_consen 54 PEVILWYKDKQRAYWVNPFLAIQGLAED 81 (104)
T ss_pred CCEEEEECCCCEEEEECHHHHHHHHHHH
T ss_conf 7279997688826998779999998766
No 13
>PF10011 DUF2254: Predicted membrane protein (DUF2254)
Probab=42.93 E-value=4.8 Score=14.81 Aligned_cols=50 Identities=18% Similarity=0.206 Sum_probs=29.0
Q ss_pred CEEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCEEECCCEEEEEEC
Q ss_conf 7787678689997523898359999808976999751266552468878606726874306
Q T0608 168 PVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGD 228 (279)
Q Consensus 168 PV~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~~i~~V~~G~~V~~Ge~IG~vG~ 228 (279)
||.|...|-|...+...-- .+--.++ +.+ . +.+++|++|.+|++|+.+=.
T Consensus 197 ~i~a~~sGYlq~Id~~~L~----~~a~~~~-----~~i-~-l~~~~G~fV~~g~pl~~v~~ 246 (371)
T PF10011_consen 197 PIRAPRSGYLQHIDYDALV----ELAEDHD-----AVI-R-LEVRPGDFVIPGQPLARVWP 246 (371)
T ss_pred EEECCCCEEEEEECHHHHH----HHHHHCC-----CEE-E-EEECCCCEECCCCEEEEEEC
T ss_conf 7867983499995499999----9999889-----689-9-99479987758971899956
No 14
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183)
Probab=38.81 E-value=6.2 Score=13.86 Aligned_cols=35 Identities=20% Similarity=0.266 Sum_probs=22.5
Q ss_pred CCCEEEEEEECCCCCCCCCCHHHHHHHHH--CCCEEEEECC
Q ss_conf 97225899981788863217089998862--2876773159
Q T0608 241 PVHLHLGIYLKEGTEEISVNPYPVLRYAE--NARIKCVYSR 279 (279)
Q Consensus 241 g~HLHfei~~~~~~~~~~vnP~~~l~~~~--~~~~~~~~~~ 279 (279)
=|++-| |.+.+..+ -||.-|-+..+ |.||+|+|-|
T Consensus 62 fP~~~f-iLIGDsgq---~DpeiY~~~a~~~P~~I~aI~IR 98 (100)
T PF09949_consen 62 FPDRKF-ILIGDSGQ---HDPEIYAEIAREFPGRILAIYIR 98 (100)
T ss_pred CCCCCE-EEEECCCC---CCHHHHHHHHHHCCCCEEEEEEE
T ss_conf 899848-99942998---59899999999788888999987
No 15
>PF01016 Ribosomal_L27: Ribosomal L27 protein; InterPro: IPR001684 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 of 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 , . L27 is a protein from the large (50S) subunit; it is essential for ribosome function, but its exact role is unclear. It belongs to a family of ribosomal proteins, examples of which are found in bacteria, chloroplasts of plants and red algae and the mitochondria of fungi (e.g. MRP7 from yeast mitochondria). The schematic relationship between these groups of proteins is shown below. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3cf5_T 2zjp_T 1y69_U 3dll_T 2zjq_T 2zjr_T 3bbo_X 2j03 2v49 2hgu_Z ....
Probab=38.27 E-value=4.9 Score=14.73 Aligned_cols=30 Identities=17% Similarity=0.272 Sum_probs=19.1
Q ss_pred CCCCCCEEECCCCCCCCCCCEEECCCCEEEEEEE
Q ss_conf 4444204702667988888778767868999752
Q T0608 149 KRGHEGTDIMAEKNTPGYYPVVSMTDGVVTEKGW 182 (279)
Q Consensus 149 ~~~H~GiDiaa~~GT~~~~PV~A~~dG~V~~a~~ 182 (279)
.++|.|.-....... -++|..||+|.|...
T Consensus 42 tk~hPG~nVg~GrD~----TLfAl~~G~V~f~~~ 71 (81)
T PF01016_consen 42 TKFHPGENVGMGRDH----TLFALVDGKVKFTKE 71 (81)
T ss_dssp --SBE---------S----EEE-S----EEECE-
T ss_pred CEEECCCCEEECCCC----CEEEEEEEEEEEEEC
T ss_conf 758566657588997----379863459999994
No 16
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate . During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions , is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organization of the prokaryotic nucleoid . A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins , , . This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1h95_A 2ytv_A 2k5n_A 2kcm_A 2ytx_A 2yty_A 1x65_A 1wfq_A 3mef_A 2bh8_A ....
Probab=31.01 E-value=8 Score=12.92 Aligned_cols=45 Identities=27% Similarity=0.275 Sum_probs=27.2
Q ss_pred CCEEEEEEECCCCCEEEEEEECCCEEEEEEECCCCCCCCCC-CEEECCCEE
Q ss_conf 86899975238983599998089769997512665524688-786067268
Q T0608 174 DGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKG-DPVKAGDLL 223 (279)
Q Consensus 174 dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~~i~~V~~G-~~V~~Ge~I 223 (279)
-|+|..-....||| .|...+|=.-+|-|.+.+ . ..+ ..++.||.+
T Consensus 3 ~G~Vk~~~~~kGyG---FI~~~~g~~diF~H~s~~-~-~~~~~~l~~G~~V 48 (67)
T PF00313_consen 3 TGTVKWFDDEKGYG---FITPDDGGEDIFFHISAL-E-GEGFRTLKEGDRV 48 (67)
T ss_dssp -EEBSEECSTTTE----EBEETTTTEEBBEEGGGB-C-SCTSTS--TT-EE
T ss_pred EEEEEEEECCCCCE---EEEECCCCCEEEEEEEHH-C-CCCCCCCCCCCEE
T ss_conf 28999997999935---897547786799874031-4-5455645789899
No 17
>PF07232 DUF1424: Putative rep protein (DUF1424); InterPro: IPR009870 This family consists of several archaeal proteins of around 320 residues in length. Members of this family seem to be found exclusively in Halobacterium and Haloferax species. The function of this family is unknown.
Probab=30.42 E-value=8.2 Score=12.84 Aligned_cols=10 Identities=30% Similarity=1.095 Sum_probs=5.5
Q ss_pred CEEEEEEECC
Q ss_conf 2258999817
Q T0608 243 HLHLGIYLKE 252 (279)
Q Consensus 243 HLHfei~~~~ 252 (279)
|+|..|+|+|
T Consensus 164 HiHv~Vfvdg 173 (328)
T PF07232_consen 164 HIHVGVFVDG 173 (328)
T ss_pred EEEEEEEECC
T ss_conf 1589999657
No 18
>PF09251 PhageP22-tail: Salmonella phage P22 tailspike; InterPro: IPR015331 Members of this entry contain a domain that adopts a structure consisting of a single-stranded right-handed beta-helix, which in turn is made of parallel beta-strands and short turns. They are required for recognition of the 0-antigenic repeating units of the cell surface, and for subsequent infection of the bacterial cell by the phage . ; PDB: 1tyw_A 1qrc_A 2vfq_A 1qa1_A 1qa3_A 2vfm_A 2vky_B 2vfo_A 1qq1_A 1tyu_A ....
Probab=30.20 E-value=8.3 Score=12.81 Aligned_cols=77 Identities=17% Similarity=0.259 Sum_probs=47.6
Q ss_pred EEECCCCEEEEEEECC--CCCEEEEEEECCCEEEEEEECCCC-CCCCCCCEEECCCEEEEE----ECCCCCCCCCCCCCC
Q ss_conf 7876786899975238--983599998089769997512665-524688786067268743----065344677778889
Q T0608 169 VVSMTDGVVTEKGWLE--KGGWRIGITAPTGAYFYYAHLDSY-AELEKGDPVKAGDLLGYM----GDSGYGEEGTTGEFP 241 (279)
Q Consensus 169 V~A~~dG~V~~a~~~~--~yGn~ViI~Hg~G~~T~Y~HL~~i-~~V~~G~~V~~Ge~IG~v----G~TG~st~~~~~~~g 241 (279)
+.--.||+++|-.-.+ |-||+|| |=.+-|+-++.. ..-..|-+-.-|-+||.. |-||.-|-.-.-..|
T Consensus 185 ~~ggkdgiitfenlsgdwg~gnyvi-----ggr~~ygs~s~~qflrnngg~~~~ggvig~ts~ragesg~ktwqgsvg~~ 259 (551)
T PF09251_consen 185 IIGGKDGIITFENLSGDWGKGNYVI-----GGRVHYGSVSSVQFLRNNGGFSHNGGVIGFTSWRAGESGFKTWQGSVGSG 259 (551)
T ss_dssp --------EEEE----------EEE--------EE-----SEEEESB-------------EEE-------EE--------
T ss_pred CCCCCCCEEEEECCCCCCCCCCEEE-----CCEECCCCCCHHHHHHHCCCCCCCCCEEEEEEEECCCCCCEEEECCCCCC
T ss_conf 8888551698531577646774575-----24011255427565441698334687788876323776501320123665
Q ss_pred CCEEEEEEE
Q ss_conf 722589998
Q T0608 242 VHLHLGIYL 250 (279)
Q Consensus 242 ~HLHfei~~ 250 (279)
.--.|-+++
T Consensus 260 tsrnynlqf 268 (551)
T PF09251_consen 260 TSRNYNLQF 268 (551)
T ss_dssp ---B-S-EE
T ss_pred CCCCCCEEE
T ss_conf 445443464
No 19
>PF09891 DUF2118: Uncharacterized protein conserved in archaea (DUF2118); PDB: 3d4r_E.
Probab=28.48 E-value=8 Score=12.93 Aligned_cols=17 Identities=41% Similarity=0.798 Sum_probs=13.9
Q ss_pred CCCCCEEECCCEEEEEE
Q ss_conf 46887860672687430
Q T0608 211 LEKGDPVKAGDLLGYMG 227 (279)
Q Consensus 211 V~~G~~V~~Ge~IG~vG 227 (279)
+..|+.|.+|+.+|++=
T Consensus 96 ~~~G~rV~~gd~lA~v~ 112 (150)
T PF09891_consen 96 ADEGDRVRKGDRLAYVT 112 (150)
T ss_dssp S----------EEEEEE
T ss_pred ECCCCEEECCCEEEEEE
T ss_conf 31132871486689997
No 20
>PF01076 Mob_Pre: Plasmid recombination enzyme; InterPro: IPR001668 With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilization) . ; GO: 0003677 DNA binding, 0006310 DNA recombination, 0005727 extrachromosomal circular DNA
Probab=27.65 E-value=9 Score=12.48 Aligned_cols=12 Identities=25% Similarity=0.230 Sum_probs=7.7
Q ss_pred CCEEEEEEECCC
Q ss_conf 976999751266
Q T0608 196 TGAYFYYAHLDS 207 (279)
Q Consensus 196 ~G~~T~Y~HL~~ 207 (279)
..+.+.+-||++
T Consensus 118 ~nv~~a~vH~DE 129 (196)
T PF01076_consen 118 ENVVSAVVHLDE 129 (196)
T ss_pred CCEEEEEEECCC
T ss_conf 527899998888
No 21
>PF04952 AstE_AspA: Succinylglutamate desuccinylase / Aspartoacylase family; InterPro: IPR007036 This family describes both succinylglutamate desuccinylase that catalyses the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway and also includes aspartoacylase 3.5.1.15 from EC which cleaves acylaspartate into a fatty acid and aspartate. Mutations in P45381 from SWISSPROT lead to Canavan disease .; GO: 0016788 hydrolase activity, acting on ester bonds, 0008152 metabolic process; PDB: 2qvp_A 3b2y_A 3fmc_C 2q51_A 2i3c_B 2o53_B 2o4h_B 2q4z_A 2gu2_A 1yw6_B ....
Probab=26.50 E-value=9.4 Score=12.33 Aligned_cols=20 Identities=50% Similarity=0.742 Sum_probs=15.4
Q ss_pred CCCCCCEEECCCEE--EEEECC
Q ss_conf 24688786067268--743065
Q T0608 210 ELEKGDPVKAGDLL--GYMGDS 229 (279)
Q Consensus 210 ~V~~G~~V~~Ge~I--G~vG~T 229 (279)
.++.||.|++||+| |.+=.+
T Consensus 234 ~~~~g~~v~~G~~l~~~~~~d~ 255 (292)
T PF04952_consen 234 EVKLGDDVDAGQLLGGGHILDP 255 (292)
T ss_dssp TTSSTTTETTTEEEEEBEEEEE
T ss_pred EECCCCCCCCCCCCCCEEEECC
T ss_conf 6522487538975275587678
No 22
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS , , : Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see ). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive. ; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 1f52_D 2lgs_I 2gls_E 1lgr_H 1f1h_A 1fpy_C 1hto_T 1htq_R 2bvc_C 2d3c_J ....
Probab=24.79 E-value=6.2 Score=13.90 Aligned_cols=21 Identities=24% Similarity=0.468 Sum_probs=13.6
Q ss_pred CCCEEEEEEECCCCCCCCCCHHHHH
Q ss_conf 9722589998178886321708999
Q T0608 241 PVHLHLGIYLKEGTEEISVNPYPVL 265 (279)
Q Consensus 241 g~HLHfei~~~~~~~~~~vnP~~~l 265 (279)
+.--|+|+++-+- ..|||-.+
T Consensus 231 ~~~~r~E~R~~da----~aNPYL~~ 251 (258)
T PF00120_consen 231 PKATRIEHRIPDA----DANPYLAL 251 (258)
T ss_dssp CGG--EEEESS-T----TS-HHHHH
T ss_pred CCCEEEEECCCCC----CCCHHHHH
T ss_conf 7560675047998----87999999
No 23
>PF07126 DUF1379: Protein of unknown function (DUF1379); InterPro: IPR009809 This family consists of several hypothetical bacterial proteins of around 180 residues in length. The function of this family is unknown.
Probab=23.67 E-value=10 Score=11.93 Aligned_cols=59 Identities=15% Similarity=0.110 Sum_probs=42.2
Q ss_pred EEECCCCEEEEEEECCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCEEECCCEEEEEEC
Q ss_conf 787678689997523898359999808976999751266552468878606726874306
Q T0608 169 VVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGD 228 (279)
Q Consensus 169 V~A~~dG~V~~a~~~~~yGn~ViI~Hg~G~~T~Y~HL~~i~~V~~G~~V~~Ge~IG~vG~ 228 (279)
-..+.-|.|+........|.++||++|.. .++=.-++.-+.....-...+||+|=.|=+
T Consensus 84 ~~~p~~g~~~~L~~~~~~~~flVvE~g~~-asLCml~~~~~~L~~~K~L~q~~~IKVMnD 142 (153)
T PF07126_consen 84 SVYPEEGEVVQLSNSGETGLFLVVENGEQ-ASLCMLLSPQFQLSGSKSLRQFDVIKVMND 142 (153)
T ss_pred CCCCCCCCEEEECCCCCEEEEEEEECCCC-EEEEEECCCCEECCCCCEEECCCEEEEECC
T ss_conf 54778887899716885689999936996-788998476423388751506882798731
No 24
>PF11382 DUF3186: Protein of unknown function (DUF3186)
Probab=23.51 E-value=11 Score=11.90 Aligned_cols=25 Identities=32% Similarity=0.280 Sum_probs=16.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9047889999999999999998877
Q T0608 1 MRHRYISYFAGIFLLAFFAVLNTGV 25 (279)
Q Consensus 1 ~r~~~i~~~~~~~~~~~~~~~~t~~ 25 (279)
|||-.+++.+.+|-|++--+.-+..
T Consensus 4 fRYHiVSi~aVFlALAvGIvlG~~~ 28 (308)
T PF11382_consen 4 FRYHIVSIAAVFLALAVGIVLGAGP 28 (308)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCHH
T ss_conf 2047999999999999999822401
No 25
>PF01597 GCV_H: Glycine cleavage H-protein; InterPro: IPR002930 This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein.; GO: 0006546 glycine catabolic process, 0005960 glycine cleavage complex; PDB: 1onl_B 2edg_A 1zko_B 2ka7_A 1dxm_A 1hpc_B 1htp_A 3hgb_A.
Probab=23.43 E-value=11 Score=11.89 Aligned_cols=21 Identities=33% Similarity=0.439 Sum_probs=11.9
Q ss_pred CCCCEEECCCEEEEEECCCCC
Q ss_conf 688786067268743065344
Q T0608 212 EKGDPVKAGDLLGYMGDSGYG 232 (279)
Q Consensus 212 ~~G~~V~~Ge~IG~vG~TG~s 232 (279)
++|+.|++|+.+|.+=+....
T Consensus 40 ~~g~~v~~g~~~~~iEs~k~v 60 (121)
T PF01597_consen 40 KVGDEVEAGDPFGSIESVKAV 60 (121)
T ss_dssp -------TT-EEEEEEESSEE
T ss_pred CCCCEECCCCEEEEEEECCEE
T ss_conf 998751279809999977578
No 26
>PF04270 Strep_his_triad: Streptococcal histidine triad protein ; InterPro: IPR006270 The sequences represented in this group are identified by a domain which consists of the N-terminal half of a family of Streptococcal proteins that contain a signal peptide and then up to five repeats of a region that includes a His-X-X-His-X-His (histidine triad) motif. Additional copies of the repeats are found in more poorly conserved regions. Members of this family from Streptococcus pneumoniae are suggested to cleave human C3, and the member PhpA has been shown in vaccine studies to be a protective antigen in mice . ; PDB: 2cs7_B.
Probab=21.53 E-value=11 Score=11.61 Aligned_cols=17 Identities=6% Similarity=-0.148 Sum_probs=11.7
Q ss_pred CEEEEEEECCCEEEEEE
Q ss_conf 35999980897699975
Q T0608 187 GWRIGITAPTGAYFYYA 203 (279)
Q Consensus 187 Gn~ViI~Hg~G~~T~Y~ 203 (279)
+.-++|.||+++..+.-
T Consensus 19 ~~gy~vpHgdH~HyI~k 35 (53)
T PF04270_consen 19 GDGYVVPHGDHYHYIPK 35 (53)
T ss_dssp --EEEEE----EEEEEG
T ss_pred CCCEEEECCCCCEECCH
T ss_conf 66148425884024443
No 27
>PF11853 DUF3373: Protein of unknown function (DUF3373)
Probab=20.72 E-value=12 Score=11.48 Aligned_cols=17 Identities=12% Similarity=0.329 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q ss_conf 88887889999999988
Q T0608 32 FQRLQKPVVSQPDFRRQ 48 (279)
Q Consensus 32 ~~~l~~~~~~~~~~~~~ 48 (279)
+++++++..+..+++++
T Consensus 30 ~qqI~~Lk~el~~Lk~q 46 (489)
T PF11853_consen 30 LQQIEELKKELAELKQQ 46 (489)
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 99999999999999976
Done!