Query 037731
Match_columns 106
No_of_seqs 102 out of 540
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 03:50:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037731.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037731hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3542 Uncharacterized conser 100.0 6.8E-29 1.5E-33 183.5 8.4 82 4-104 80-161 (162)
2 PF06172 Cupin_5: Cupin superf 99.9 1.2E-26 2.6E-31 168.3 7.3 65 1-84 75-139 (139)
3 COG3822 ABC-type sugar transpo 74.5 6.3 0.00014 31.1 4.4 51 7-79 142-194 (225)
4 PF05523 FdtA: WxcM-like, C-te 69.1 18 0.00038 25.5 5.4 46 10-80 74-119 (131)
5 PF00908 dTDP_sugar_isom: dTDP 65.3 32 0.00069 25.7 6.4 31 8-42 92-122 (176)
6 PF07385 DUF1498: Protein of u 47.8 51 0.0011 26.2 5.1 66 8-98 144-211 (225)
7 PF03942 DTW: DTW domain; Int 46.7 5.9 0.00013 29.5 -0.2 21 21-41 110-130 (203)
8 PF13621 Cupin_8: Cupin-like d 44.3 13 0.00029 27.0 1.4 18 22-41 215-232 (251)
9 COG0662 {ManC} Mannose-6-phosp 36.7 86 0.0019 21.6 4.4 39 22-81 81-119 (127)
10 PF11946 DUF3463: Domain of un 35.3 20 0.00043 26.5 1.0 23 70-92 2-28 (138)
11 PF11211 DUF2997: Protein of u 35.1 41 0.00089 20.3 2.3 16 2-18 3-18 (48)
12 KOG1775 U6 snRNA-associated Sm 28.9 68 0.0015 21.8 2.7 30 2-33 51-80 (84)
13 PF14400 Transglut_i_TM: Inact 28.5 98 0.0021 23.2 3.8 58 11-78 1-62 (165)
14 PF03193 DUF258: Protein of un 28.5 15 0.00033 27.2 -0.5 30 72-101 94-123 (161)
15 TIGR01221 rmlC dTDP-4-dehydror 28.5 2.5E+02 0.0054 21.0 6.0 30 9-42 93-122 (176)
16 cd01181 IPT_plexin_repeat3 Thi 28.5 97 0.0021 20.7 3.5 23 8-30 14-36 (99)
17 TIGR00157 ribosome small subun 25.0 40 0.00087 25.9 1.2 30 72-101 178-207 (245)
18 cd06860 PX_SNX7_30_like The ph 23.0 47 0.001 22.8 1.2 31 64-95 21-60 (116)
19 cd01785 PDZ_GEF_RA Ubiquitin-l 23.0 89 0.0019 21.3 2.5 14 61-74 42-55 (85)
20 cd07283 PX_SNX30 The phosphoin 22.3 60 0.0013 22.5 1.6 30 64-94 21-59 (116)
21 PF08984 DUF1858: Domain of un 21.3 45 0.00097 20.2 0.7 17 86-102 8-24 (59)
22 COG1162 Predicted GTPases [Gen 20.3 42 0.00092 27.5 0.6 29 72-100 223-251 (301)
No 1
>COG3542 Uncharacterized conserved protein [Function unknown]
Probab=99.96 E-value=6.8e-29 Score=183.52 Aligned_cols=82 Identities=44% Similarity=0.801 Sum_probs=74.7
Q ss_pred EeCCCCcEEEEEeCCCCCCCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCCcccc
Q 037731 4 LNDKDGKIKLTCLGNDLGNNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFEDFELA 83 (106)
Q Consensus 4 l~~~dG~~~~~vLG~dl~~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~Dfe~~ 83 (106)
+.. ||..+..+||+|+.+||++|++||+|+|++|+... +.+|+||||||+|||+|+||+|+
T Consensus 80 l~~-dG~~~s~~LG~d~~~Ge~~Q~vVP~g~w~aS~~~~------------------g~~~tLVgCtVaPGFdF~~Fela 140 (162)
T COG3542 80 LSE-DGGAESFTLGPDLEKGERPQYVVPAGTWWASAVSL------------------GEDYTLVGCTVAPGFDFEDFELA 140 (162)
T ss_pred EEe-CCCeEEEEecccccCCceeEEEEeCCcEEEEEEec------------------CCCceEEEEEecCCccchhcccc
Confidence 444 89999999999999999999999999888777642 23799999999999999999999
Q ss_pred ChhchhhhCCCcHHHHhhhCC
Q 037731 84 KRSDLVSSFPNHAPLISLLTF 104 (106)
Q Consensus 84 ~~~~L~~~~P~~~~~I~~lt~ 104 (106)
++++|++.||.++++|.+|++
T Consensus 141 ~~~dlL~~~p~~~~~ie~l~~ 161 (162)
T COG3542 141 EPEDLLKWYPGPAEAIERLAL 161 (162)
T ss_pred CchhhhhcCCCcHHHHHHHhh
Confidence 999999999999999999986
No 2
>PF06172 Cupin_5: Cupin superfamily (DUF985); InterPro: IPR009327 This is a family of uncharacterised proteins found in bacteria and eukaryotes.; PDB: 1ZNP_G 1XE8_B 1XE7_A 3M3I_F 3LOI_A 3LZZ_B 1YUD_D.
Probab=99.93 E-value=1.2e-26 Score=168.32 Aligned_cols=65 Identities=45% Similarity=0.790 Sum_probs=54.9
Q ss_pred CEEEeCCCCcEEEEEeCCCCCCCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCCc
Q 037731 1 IFELNDKDGKIKLTCLGNDLGNNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFEDF 80 (106)
Q Consensus 1 ~~~l~~~dG~~~~~vLG~dl~~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~Df 80 (106)
+++|+| ||++++++||+|+++||++|++||+|+||||++.. .++|+||||||+|||+|+||
T Consensus 75 l~~i~~-dg~~~~~~LG~d~~~g~~~q~vVp~G~W~aa~l~~------------------~~~y~Lvsc~VaPGF~f~df 135 (139)
T PF06172_consen 75 LHLIDP-DGSYETVVLGPDLAAGERPQVVVPAGTWQAAELEP------------------EGDYSLVSCTVAPGFDFEDF 135 (139)
T ss_dssp EEEECT-TSTEEEEEESSTTCTTEBSEEEE-TTSEEEEEECE------------------SSSEEEEEEEESSC--GGGE
T ss_pred EEEEcC-CCCeEEEEECCCCCCCceEEEEECCCEEEEccccC------------------CCCEEEEEEEEcCCCchHHc
Confidence 467886 99999999999999999999999999999998742 36899999999999999999
Q ss_pred cccC
Q 037731 81 ELAK 84 (106)
Q Consensus 81 e~~~ 84 (106)
+|++
T Consensus 136 el~~ 139 (139)
T PF06172_consen 136 ELAK 139 (139)
T ss_dssp EE--
T ss_pred EecC
Confidence 9974
No 3
>COG3822 ABC-type sugar transport system, auxiliary component [General function prediction only]
Probab=74.51 E-value=6.3 Score=31.06 Aligned_cols=51 Identities=24% Similarity=0.356 Sum_probs=37.1
Q ss_pred CCCcEEEEEeCCCC--CCCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCC
Q 037731 7 KDGKIKLTCLGNDL--GNNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFED 79 (106)
Q Consensus 7 ~dG~~~~~vLG~dl--~~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~D 79 (106)
.||...+...|.-+ ..|| ++.+|+|+|.+=.- ++++.|||++=+=-=|-.|
T Consensus 142 ~dg~r~~~~ag~~lkL~PGe--sitL~Pg~~HsFwa--------------------e~g~vlvgEvSsvndD~hD 194 (225)
T COG3822 142 VDGCRQTHTAGSQLKLSPGE--SITLPPGLYHSFWA--------------------EEGGVLVGEVSSVNDDLHD 194 (225)
T ss_pred CCCcEEEeccceeEEECCCC--cEecCCCceeeeee--------------------cCCcEEEEEEeeccCcccc
Confidence 48888888888765 3576 78999999987542 2468999998665444444
No 4
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=69.06 E-value=18 Score=25.55 Aligned_cols=46 Identities=20% Similarity=0.342 Sum_probs=22.3
Q ss_pred cEEEEEeCCCCCCCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCCc
Q 037731 10 KIKLTCLGNDLGNNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFEDF 80 (106)
Q Consensus 10 ~~~~~vLG~dl~~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~Df 80 (106)
..+..+|..+- --+.||+|+|.+.....+ + |.+=+...=.|+.+|+
T Consensus 74 ~~~~~~L~~~~-----~~L~Ippg~w~~~~~~s~-------------------~-svlLv~as~~yd~~Dy 119 (131)
T PF05523_consen 74 EEEEFILDEPN-----KGLYIPPGVWHGIKNFSE-------------------D-SVLLVLASEPYDEEDY 119 (131)
T ss_dssp -EEEEEE--TT-----EEEEE-TT-EEEEE---T-------------------T--EEEEEESS---GGGE
T ss_pred CcEEEEECCCC-----eEEEECCchhhHhhccCC-------------------C-cEEEEEcCCCCChhhc
Confidence 34556666542 247899999999875431 2 5555566667888777
No 5
>PF00908 dTDP_sugar_isom: dTDP-4-dehydrorhamnose 3,5-epimerase; InterPro: IPR000888 Deoxythymidine diphosphate (dTDP)-4-keto-6-deoxy-d-hexulose 3, 5-epimerase (RmlC, 5.1.3.13 from EC) is involved in the biosynthesis of dTDP-l-rhamnose, which is an essential component of the bacterial cell wall, converting dTDP-4-keto-6-deoxy-D-glucose to dTDP-4-keto-L-rhamnose. The crystal structure of RmlC from Methanobacterium thermoautotrophicum was determined in the presence and absence of a substrate analogue. RmlC is a homodimer comprising a central jelly roll motif, which extends in two directions into longer beta-sheets. Binding of dTDP is stabilised by ionic interactions to the phosphate group and by a combination of ionic and hydrophobic interactions with the base. The active site, which is located in the centre of the jelly roll, is formed by residues that are conserved in all known RmlC sequence homologues. The active site is lined with a number of charged residues and a number of residues with hydrogen-bonding potentials, which together comprise a potential network for substrate binding and catalysis. The active site is also lined with aromatic residues which provide favorable environments for the base moiety of dTDP and potentially for the sugar moiety of the substrate [].; GO: 0008830 dTDP-4-dehydrorhamnose 3,5-epimerase activity, 0009103 lipopolysaccharide biosynthetic process; PDB: 1EPZ_A 1EP0_A 1NXM_A 1NZC_D 2IXL_C 1NYW_B 2IXC_D 1PM7_B 1UPI_A 3RYK_B ....
Probab=65.30 E-value=32 Score=25.70 Aligned_cols=31 Identities=26% Similarity=0.251 Sum_probs=22.3
Q ss_pred CCcEEEEEeCCCCCCCccceEEeCCCceEEeeeCC
Q 037731 8 DGKIKLTCLGNDLGNNQQPQYTVPPNVWFGSFPTN 42 (106)
Q Consensus 8 dG~~~~~vLG~dl~~Ge~~Q~vVP~G~W~aA~~~~ 42 (106)
=|++....|+.+ ...|+.||+|+|.|=..+.
T Consensus 92 fg~~~~~~Ls~~----n~~~l~IP~G~aHGf~~l~ 122 (176)
T PF00908_consen 92 FGKWVSVELSAE----NPRQLYIPPGVAHGFQTLE 122 (176)
T ss_dssp TT-EEEEEEETT----T--EEEE-TTEEEEEEESS
T ss_pred CCEEEEEEeCcc----ccCEEEeCCcceeeEEecc
Confidence 388888888875 3579999999999988764
No 6
>PF07385 DUF1498: Protein of unknown function (DUF1498); InterPro: IPR010864 This family consists of several hypothetical bacterial proteins of around 225 residues in length. The function of this family is unknown.; PDB: 3MPB_B 3KMH_A.
Probab=47.76 E-value=51 Score=26.18 Aligned_cols=66 Identities=18% Similarity=0.264 Sum_probs=36.4
Q ss_pred CCcEEEEEeCCCC--CCCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCCccccCh
Q 037731 8 DGKIKLTCLGNDL--GNNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFEDFELAKR 85 (106)
Q Consensus 8 dG~~~~~vLG~dl--~~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~Dfe~~~~ 85 (106)
||..+++--|.-| ..|| ++.+++|.|..=... .+.+|||++=.--=|-.|=.|.+.
T Consensus 144 DG~~~t~~aG~~l~L~PGE--SiTL~Pg~yH~Fw~e--------------------~g~vLigEVStvNDD~tDN~F~~p 201 (225)
T PF07385_consen 144 DGIRRTVPAGTQLRLNPGE--SITLPPGIYHWFWGE--------------------GGDVLIGEVSTVNDDNTDNRFLEP 201 (225)
T ss_dssp TTEEEEE-TT-EEEE-TT---EEEE-TTEEEEEEE---------------------TTSEEEEEEEE---TTTSEEESS-
T ss_pred CCcEEEecCCceEEeCCCC--eEeeCCCCeeeEEec--------------------CCCEEEEeeecccCCCccccccCC
Confidence 6766666666644 3577 789999999876543 245999999887777777667654
Q ss_pred hchhhhCCCcHHH
Q 037731 86 SDLVSSFPNHAPL 98 (106)
Q Consensus 86 ~~L~~~~P~~~~~ 98 (106)
+.+||+-.+.
T Consensus 202 ---igRfp~IeED 211 (225)
T PF07385_consen 202 ---IGRFPEIEED 211 (225)
T ss_dssp -----SS---B-S
T ss_pred ---cCCCCCCccC
Confidence 6677765543
No 7
>PF03942 DTW: DTW domain; InterPro: IPR005636 This presumed domain is found in bacterial and eukaryotic proteins. Its function is unknown. The domain contains multiple conserved motifs including a DTXW motif that this domain has been named after.
Probab=46.75 E-value=5.9 Score=29.47 Aligned_cols=21 Identities=10% Similarity=0.139 Sum_probs=17.3
Q ss_pred CCCccceEEeCCCceEEeeeC
Q 037731 21 GNNQQPQYTVPPNVWFGSFPT 41 (106)
Q Consensus 21 ~~Ge~~Q~vVP~G~W~aA~~~ 41 (106)
..+..+.+||.-|||+-|+-+
T Consensus 110 ~~~~~~~lIviDgTW~qA~km 130 (203)
T PF03942_consen 110 DSGKPKTLIVIDGTWRQAKKM 130 (203)
T ss_pred ccCCceEEEEECCchHHHHHH
Confidence 346789999999999988755
No 8
>PF13621 Cupin_8: Cupin-like domain; PDB: 3AL6_C 3AL5_C 2XUM_A 2Y0I_A 1MZE_A 3KCY_A 1MZF_A 1YCI_A 2ILM_A 1H2L_A ....
Probab=44.30 E-value=13 Score=27.01 Aligned_cols=18 Identities=17% Similarity=0.349 Sum_probs=12.6
Q ss_pred CCccceEEeCCCceEEeeeC
Q 037731 22 NNQQPQYTVPPNVWFGSFPT 41 (106)
Q Consensus 22 ~Ge~~Q~vVP~G~W~aA~~~ 41 (106)
.|+ .+.||+|||...+..
T Consensus 215 pGD--~LfiP~gWwH~V~~~ 232 (251)
T PF13621_consen 215 PGD--VLFIPPGWWHQVENL 232 (251)
T ss_dssp TT---EEEE-TT-EEEEEES
T ss_pred CCe--EEEECCCCeEEEEEc
Confidence 466 588999999999987
No 9
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=36.69 E-value=86 Score=21.57 Aligned_cols=39 Identities=13% Similarity=-0.027 Sum_probs=26.3
Q ss_pred CCccceEEeCCCceEEeeeCCCCCCCCCCcccccccCCCCCceEEEEeeecCCcccCCcc
Q 037731 22 NNQQPQYTVPPNVWFGSFPTNDFHISPDGAVSKVESRDAESHYSLVGCTCAPAFQFEDFE 81 (106)
Q Consensus 22 ~Ge~~Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~~~~~~ysLv~ctVaPGF~f~Dfe 81 (106)
.|+ .++||+|+++.-+..+. .=-.+=|+.+|.+..+|-.
T Consensus 81 ~gd--~~~iP~g~~H~~~N~G~-------------------~~L~liei~~p~~~~e~~~ 119 (127)
T COG0662 81 AGD--SVYIPAGTPHRVRNTGK-------------------IPLVLIEVQSPPYLGEDDI 119 (127)
T ss_pred CCC--EEEECCCCcEEEEcCCC-------------------cceEEEEEecCCcCCCceE
Confidence 454 58999999999887642 1244556667777666543
No 10
>PF11946 DUF3463: Domain of unknown function (DUF3463); InterPro: IPR022563 This functionally uncharacterised domain is found in bacteria and archaea, which is about 140 amino acids in length and is found C-terminal to PF04055 from PFAM. It contains two conserved sequence motifs: CTPWG and PCYL. This domain is associated with hopanoid biosynthesis associated radical SAM proteins.
Probab=35.34 E-value=20 Score=26.47 Aligned_cols=23 Identities=17% Similarity=0.378 Sum_probs=14.7
Q ss_pred eecCCcccCCc----cccChhchhhhC
Q 037731 70 TCAPAFQFEDF----ELAKRSDLVSSF 92 (106)
Q Consensus 70 tVaPGF~f~Df----e~~~~~~L~~~~ 92 (106)
+|+|||.++-- -|++|+++.++|
T Consensus 2 ~iSpgy~Ye~ap~q~~fl~r~~t~~lf 28 (138)
T PF11946_consen 2 MISPGYSYEYAPDQDHFLNREQTRELF 28 (138)
T ss_pred eecCccccCCCchhhccCCHHHHHHHH
Confidence 79999998644 244455555543
No 11
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=35.15 E-value=41 Score=20.27 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=13.6
Q ss_pred EEEeCCCCcEEEEEeCC
Q 037731 2 FELNDKDGKIKLTCLGN 18 (106)
Q Consensus 2 ~~l~~~dG~~~~~vLG~ 18 (106)
+.|+| ||+++..+.|-
T Consensus 3 ~~I~~-dG~V~~~v~G~ 18 (48)
T PF11211_consen 3 FTIYP-DGRVEEEVEGF 18 (48)
T ss_pred EEECC-CcEEEEEEEec
Confidence 57887 99999999884
No 12
>KOG1775 consensus U6 snRNA-associated Sm-like protein [RNA processing and modification]
Probab=28.92 E-value=68 Score=21.76 Aligned_cols=30 Identities=27% Similarity=0.450 Sum_probs=21.8
Q ss_pred EEEeCCCCcEEEEEeCCCCCCCccceEEeCCC
Q 037731 2 FELNDKDGKIKLTCLGNDLGNNQQPQYTVPPN 33 (106)
Q Consensus 2 ~~l~~~dG~~~~~vLG~dl~~Ge~~Q~vVP~G 33 (106)
|.+.| +|+ +...++.=+.+|..-..+||+|
T Consensus 51 ye~~~-egr-~~tk~~~iLLnGNni~mLvPGG 80 (84)
T KOG1775|consen 51 YEITP-EGR-RMTKLDQILLNGNNITMLVPGG 80 (84)
T ss_pred eeeCC-Ccc-eeeeeeeeeecCCcEEEEecCC
Confidence 45665 664 3344677777888889999999
No 13
>PF14400 Transglut_i_TM: Inactive transglutaminase fused to 7 transmembrane helices
Probab=28.51 E-value=98 Score=23.21 Aligned_cols=58 Identities=21% Similarity=0.335 Sum_probs=38.9
Q ss_pred EEEEEeCCCCCCCccc-eEEeCCCceEEeeeCCCCCCCCCCcccccccC--CCCCceEEEEe-eecCCcccC
Q 037731 11 IKLTCLGNDLGNNQQP-QYTVPPNVWFGSFPTNDFHISPDGAVSKVESR--DAESHYSLVGC-TCAPAFQFE 78 (106)
Q Consensus 11 ~~~~vLG~dl~~Ge~~-Q~vVP~G~W~aA~~~~d~~~~~~~~~~k~~~~--~~~~~ysLv~c-tVaPGF~f~ 78 (106)
++..++|-.+..||+. .+.|.+-+=|-|. |+.+|.+-. +...+|.++.+ +++|||-++
T Consensus 1 yrh~~~gvP~~Pge~~~vW~VEArV~F~a~----------g~pvkvsl~lP~~~pgf~il~E~~~SpGYGls 62 (165)
T PF14400_consen 1 YRHIVLGVPLLPGEQRQVWNVEARVEFDAT----------GGPVKVSLALPDTQPGFTILDENFASPGYGLS 62 (165)
T ss_pred CceEEeCCCCCCCCceeEEEEEEEEEEecC----------CCCEEEEEcCCCCCCCeEEEccccccCCCCeE
Confidence 4677899999998765 4568888777765 223443322 12357999887 688988664
No 14
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=28.50 E-value=15 Score=27.23 Aligned_cols=30 Identities=23% Similarity=0.389 Sum_probs=23.3
Q ss_pred cCCcccCCccccChhchhhhCCCcHHHHhh
Q 037731 72 APAFQFEDFELAKRSDLVSSFPNHAPLISL 101 (106)
Q Consensus 72 aPGF~f~Dfe~~~~~~L~~~~P~~~~~I~~ 101 (106)
.|||.-=+....+.++|...||+.++++..
T Consensus 94 TPGf~~~~l~~~~~~~l~~~F~e~~~~~~~ 123 (161)
T PF03193_consen 94 TPGFRSFGLWHIDPEELAQYFPEFRPLAGQ 123 (161)
T ss_dssp SHHHHT--GCCS-HHHHHHCSGGGHHHTTH
T ss_pred CCCCCccccccCCHHHHHHHHHHhccccCC
Confidence 699988888777899999999999998754
No 15
>TIGR01221 rmlC dTDP-4-dehydrorhamnose 3,5-epimerase. This enzyme participates in the biosynthesis of dTDP-L-rhamnose, often as a precursor to LPS O-antigen
Probab=28.46 E-value=2.5e+02 Score=20.95 Aligned_cols=30 Identities=20% Similarity=0.184 Sum_probs=23.3
Q ss_pred CcEEEEEeCCCCCCCccceEEeCCCceEEeeeCC
Q 037731 9 GKIKLTCLGNDLGNNQQPQYTVPPNVWFGSFPTN 42 (106)
Q Consensus 9 G~~~~~vLG~dl~~Ge~~Q~vVP~G~W~aA~~~~ 42 (106)
|++....|+.+ ...++.||+|+|.|=..+.
T Consensus 93 G~~~~~~L~~~----~~~~l~IP~G~aHGF~~L~ 122 (176)
T TIGR01221 93 GKWVGVLLSAE----NKRQLWIPEGFAHGFVVLS 122 (176)
T ss_pred CeEEEEEECCC----CCCEEEeCCcceeEEEEcC
Confidence 67777778754 3468999999999977664
No 16
>cd01181 IPT_plexin_repeat3 Third repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=28.46 E-value=97 Score=20.73 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=20.1
Q ss_pred CCcEEEEEeCCCCCCCccceEEe
Q 037731 8 DGKIKLTCLGNDLGNNQQPQYTV 30 (106)
Q Consensus 8 dG~~~~~vLG~dl~~Ge~~Q~vV 30 (106)
.|..+..|.|.++..|++|.+.|
T Consensus 14 SGGt~itV~G~~Lds~q~p~~~V 36 (99)
T cd01181 14 SGGTPITVTGTNLNTVQEPRIRV 36 (99)
T ss_pred CCCEEEEEEeeccCcccccEEEE
Confidence 46778899999999999888887
No 17
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=24.97 E-value=40 Score=25.90 Aligned_cols=30 Identities=13% Similarity=0.162 Sum_probs=25.5
Q ss_pred cCCcccCCccccChhchhhhCCCcHHHHhh
Q 037731 72 APAFQFEDFELAKRSDLVSSFPNHAPLISL 101 (106)
Q Consensus 72 aPGF~f~Dfe~~~~~~L~~~~P~~~~~I~~ 101 (106)
+|||..-++.-.+.++|...||+..+++..
T Consensus 178 tPG~~~~~l~~~~~~~~~~~f~e~~~~~~~ 207 (245)
T TIGR00157 178 TPGFNEFGLWHLEPEQLTQGFVEFRDYLGE 207 (245)
T ss_pred CCCccccCCCCCCHHHHHHhCHHHHHHhCC
Confidence 799988888777888999999998887754
No 18
>cd06860 PX_SNX7_30_like The phosphoinositide binding Phox Homology domain of Sorting Nexins 7 and 30. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. This subfamily consists of SNX7, SNX30, and similar proteins. They harbor a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal
Probab=23.05 E-value=47 Score=22.77 Aligned_cols=31 Identities=32% Similarity=0.569 Sum_probs=21.1
Q ss_pred eEEEEeeecCCcc---------cCCccccChhchhhhCCCc
Q 037731 64 YSLVGCTCAPAFQ---------FEDFELAKRSDLVSSFPNH 95 (106)
Q Consensus 64 ysLv~ctVaPGF~---------f~Dfe~~~~~~L~~~~P~~ 95 (106)
|...+-+..|+|+ |+||+.+ ++.|.+.||..
T Consensus 21 Y~I~~~~~~~~~~~~~~~V~RRysdF~~L-~~~L~~~~p~~ 60 (116)
T cd06860 21 YRVTTKTTRSEFDSSEYSVRRRYQDFLWL-RQKLEESHPTH 60 (116)
T ss_pred EEEEEeeCCCCcCCCceEEEeeHHHHHHH-HHHHHHHCCCC
Confidence 5555556677785 6777777 46788888753
No 19
>cd01785 PDZ_GEF_RA Ubiquitin-like domain of PDZ_GEF_RA. PDZ_GEF_RA PDZ-GEF is a guanine nucleotide exchange factor (GEF) characterised by the presence of a PSD-95/DlgA/ZO-1 (PDZ) domain, a Ras-association (RA) domain and a region related to a cyclic nucleotide binding domain (RCBD). RA-GEF exchanges nucleotides of both Rap1 and Rap2, but is also thought to mediate cAMP-induced Ras activation. The RA domain interacts with Rap1 and also contributes to the membrane localization of RA-GEF. This domain may function in a positive feedback loop.
Probab=23.00 E-value=89 Score=21.33 Aligned_cols=14 Identities=29% Similarity=0.579 Sum_probs=12.0
Q ss_pred CCceEEEEeeecCC
Q 037731 61 ESHYSLVGCTCAPA 74 (106)
Q Consensus 61 ~~~ysLv~ctVaPG 74 (106)
...|||+-+||.||
T Consensus 42 s~~~sLceVtV~~~ 55 (85)
T cd01785 42 SSNFSLCEVSVTPG 55 (85)
T ss_pred ccceEEEEEEecCC
Confidence 35799999999986
No 20
>cd07283 PX_SNX30 The phosphoinositide binding Phox Homology domain of Sorting Nexin 30. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX30 harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to the sorting nexins SNX1-2, SNX4-8, and SNX32
Probab=22.30 E-value=60 Score=22.50 Aligned_cols=30 Identities=30% Similarity=0.566 Sum_probs=21.7
Q ss_pred eEEEEeeecCCc---------ccCCccccChhchhhhCCC
Q 037731 64 YSLVGCTCAPAF---------QFEDFELAKRSDLVSSFPN 94 (106)
Q Consensus 64 ysLv~ctVaPGF---------~f~Dfe~~~~~~L~~~~P~ 94 (106)
|...+-+-.|+| .|+||+.+ ++.|.+.||.
T Consensus 21 Y~I~t~t~~~~~~~~~~~V~RRYsDF~~L-~~~L~~~~p~ 59 (116)
T cd07283 21 YRVTTKTTRTEFDLPEYSVRRRYQDFDWL-RNKLEESQPT 59 (116)
T ss_pred EEEEEecCCCCcccCceEEeCCccHHHHH-HHHHHHhCCC
Confidence 777777777888 45677776 4668877876
No 21
>PF08984 DUF1858: Domain of unknown function (DUF1858); InterPro: IPR015077 This protein has no known function. It is found in various hypothetical bacterial proteins. ; PDB: 2K53_A 2K5E_A 2FI0_A.
Probab=21.29 E-value=45 Score=20.23 Aligned_cols=17 Identities=12% Similarity=0.391 Sum_probs=13.2
Q ss_pred hchhhhCCCcHHHHhhh
Q 037731 86 SDLVSSFPNHAPLISLL 102 (106)
Q Consensus 86 ~~L~~~~P~~~~~I~~l 102 (106)
.+|+++||+..++..++
T Consensus 8 ~el~~~yP~~~~il~~~ 24 (59)
T PF08984_consen 8 YELLEQYPELIEILVSY 24 (59)
T ss_dssp HHHHHH-GGGHHHHHHT
T ss_pred HHHHHHCHHHHHHHHHc
Confidence 57899999999987665
No 22
>COG1162 Predicted GTPases [General function prediction only]
Probab=20.34 E-value=42 Score=27.53 Aligned_cols=29 Identities=31% Similarity=0.516 Sum_probs=26.2
Q ss_pred cCCcccCCccccChhchhhhCCCcHHHHh
Q 037731 72 APAFQFEDFELAKRSDLVSSFPNHAPLIS 100 (106)
Q Consensus 72 aPGF~f~Dfe~~~~~~L~~~~P~~~~~I~ 100 (106)
.|||.-=++....+++|...||+.+++..
T Consensus 223 TPGf~~~~l~~~~~e~l~~~F~ef~~~~~ 251 (301)
T COG1162 223 TPGFRSLGLAHLEPEDLVQAFPEFAELAR 251 (301)
T ss_pred CCCCCccCcccCCHHHHHHHhHHHHHHhc
Confidence 69999988888999999999999998875
Done!