Query 035056
Match_columns 74
No_of_seqs 103 out of 390
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 08:50:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035056hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13850 ERGIC_N: Endoplasmic 99.9 4E-25 8.8E-30 134.6 3.8 64 1-65 33-96 (96)
2 KOG2667 COPII vesicle protein 99.8 1.2E-21 2.6E-26 142.5 1.8 71 1-72 38-108 (379)
3 KOG3111 D-ribulose-5-phosphate 70.6 2.6 5.7E-05 29.3 1.3 21 42-64 28-48 (224)
4 PRK08883 ribulose-phosphate 3- 45.7 12 0.00025 25.6 1.1 19 43-63 24-42 (220)
5 PRK08745 ribulose-phosphate 3- 45.0 12 0.00027 25.7 1.2 19 43-63 28-46 (223)
6 PRK09722 allulose-6-phosphate 44.6 13 0.00027 25.8 1.2 18 44-63 27-44 (229)
7 PF09458 H_lectin: H-type lect 40.1 17 0.00038 19.9 1.1 25 30-54 3-27 (72)
8 PF00834 Ribul_P_3_epim: Ribul 40.1 17 0.00037 24.5 1.3 18 43-62 24-41 (201)
9 PRK08005 epimerase; Validated 39.3 16 0.00035 24.9 1.0 19 43-63 25-43 (210)
10 PF13944 Lipocalin_6: Lipocali 38.6 37 0.00081 21.1 2.5 18 28-45 101-118 (125)
11 PTZ00170 D-ribulose-5-phosphat 36.8 19 0.00042 24.5 1.1 19 43-63 31-49 (228)
12 PRK08091 ribulose-phosphate 3- 32.9 22 0.00048 24.7 0.9 19 43-63 37-55 (228)
13 PF12544 LAM_C: Lysine-2,3-ami 30.9 75 0.0016 20.4 3.0 33 8-40 3-35 (127)
14 PRK14057 epimerase; Provisiona 29.5 28 0.00061 24.6 1.0 19 43-63 44-62 (254)
15 COG0036 Rpe Pentose-5-phosphat 29.1 29 0.00063 24.2 1.0 18 44-63 29-46 (220)
16 PF03404 Mo-co_dimer: Mo-co ox 29.1 1.1E+02 0.0023 19.2 3.6 31 32-62 78-109 (131)
17 PF13860 FlgD_ig: FlgD Ig-like 25.4 1.4E+02 0.003 16.8 4.3 28 32-60 12-39 (81)
No 1
>PF13850 ERGIC_N: Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)
Probab=99.91 E-value=4e-25 Score=134.62 Aligned_cols=64 Identities=33% Similarity=0.695 Sum_probs=60.9
Q ss_pred CEEEeeehhhhccccceEEEEEEcCCCCCceEEEEEeEEEccccceeeeeeeeecCCceeecccC
Q 035056 1 MVTFILQELNNYLTVTTSTAVIVDKSTDGDFLRIDFNMSFPSLPCEFASIDVSNVLGTVSYSSCQ 65 (74)
Q Consensus 1 ~~~L~~~E~~~y~~~~~~~~l~VD~~~~~~~l~In~DItfp~~pC~~lsvDv~D~~G~~~~~i~~ 65 (74)
|++|+++|+++|+++++++++.||++++ ++++||||||||+|||++|++|++|++|+++.|++|
T Consensus 33 ~~~L~~~E~~~y~~~~~~~~~~VD~~~~-~~l~in~ditf~~~pC~~l~vDv~D~~G~~~~dv~h 96 (96)
T PF13850_consen 33 IVILFISELYSYLSGEIKYQLVVDTSRD-EKLQINFDITFPHMPCDFLSVDVQDASGDHQLDVTH 96 (96)
T ss_pred HHHHHHHHHHHHcccceeEEEEEcCCCC-ceEEEEEEEEECCCccCeeeeEeEccCCCeeccccC
Confidence 3578999999999999999999999888 999999999999999999999999999999999976
No 2
>KOG2667 consensus COPII vesicle protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.83 E-value=1.2e-21 Score=142.54 Aligned_cols=71 Identities=37% Similarity=0.696 Sum_probs=67.7
Q ss_pred CEEEeeehhhhccccceEEEEEEcCCCCCceEEEEEeEEEccccceeeeeeeeecCCceeecccCCEEEEEE
Q 035056 1 MVTFILQELNNYLTVTTSTAVIVDKSTDGDFLRIDFNMSFPSLPCEFASIDVSNVLGTVSYSSCQFLCSMVL 72 (74)
Q Consensus 1 ~~~L~~~E~~~y~~~~~~~~l~VD~~~~~~~l~In~DItfp~~pC~~lsvDv~D~~G~~~~~i~~~i~k~~~ 72 (74)
|++|+++|+..|+.+...++++||.+++ ++++||||||||+|||+++++|++|.+|+.+.++.++|+|-||
T Consensus 38 i~~L~~~E~~~y~~~~~~~~~~vd~s~~-e~l~in~DItfp~lpC~~lsVDv~D~sg~~~l~i~~~i~k~rl 108 (379)
T KOG2667|consen 38 ILFLFFMELSQYLSVITSTELFVDDSRD-EKLQINFDITFPALPCSILSVDVMDVSGEMVLDIDHLIYKLRL 108 (379)
T ss_pred HHHHHHHHHHHHhhhcceeEEEEeCCCC-ceeeeeeeEEeccCccceEEEEeeccccccccchhhhhhhccc
Confidence 4678999999999999999999999996 9999999999999999999999999999999999999999876
No 3
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=70.56 E-value=2.6 Score=29.25 Aligned_cols=21 Identities=14% Similarity=0.251 Sum_probs=16.4
Q ss_pred cccceeeeeeeeecCCceeeccc
Q 035056 42 SLPCEFASIDVSNVLGTVSYSSC 64 (74)
Q Consensus 42 ~~pC~~lsvDv~D~~G~~~~~i~ 64 (74)
+.-|++||+|++| |....|++
T Consensus 28 ~~GadwlHlDVMD--g~FVpNiT 48 (224)
T KOG3111|consen 28 DAGADWLHLDVMD--GHFVPNIT 48 (224)
T ss_pred HcCCCeEEEeeec--ccccCCcc
Confidence 3568999999999 77666653
No 4
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=45.73 E-value=12 Score=25.60 Aligned_cols=19 Identities=11% Similarity=0.072 Sum_probs=14.8
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..|+++|+|++| |.-..|+
T Consensus 24 ~g~~~lH~DvmD--G~Fvpn~ 42 (220)
T PRK08883 24 AGADVVHFDVMD--NHYVPNL 42 (220)
T ss_pred cCCCEEEEeccc--CcccCcc
Confidence 468999999999 7655554
No 5
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=45.01 E-value=12 Score=25.68 Aligned_cols=19 Identities=11% Similarity=0.134 Sum_probs=14.7
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..++++|+|++| |.-..|+
T Consensus 28 ~g~d~lHiDimD--G~FVPN~ 46 (223)
T PRK08745 28 AGADWVHFDVMD--NHYVPNL 46 (223)
T ss_pred cCCCEEEEeccc--CccCCCc
Confidence 468899999999 7665554
No 6
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=44.58 E-value=13 Score=25.81 Aligned_cols=18 Identities=17% Similarity=0.351 Sum_probs=14.3
Q ss_pred cceeeeeeeeecCCceeecc
Q 035056 44 PCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 44 pC~~lsvDv~D~~G~~~~~i 63 (74)
.|+++|+|++| |.-..|+
T Consensus 27 g~d~lH~DiMD--G~FVPN~ 44 (229)
T PRK09722 27 KADYFHIDIMD--GHFVPNL 44 (229)
T ss_pred CCCEEEEeccc--CccCCCc
Confidence 58899999999 7665554
No 7
>PF09458 H_lectin: H-type lectin domain; InterPro: IPR019019 The H-type lectin domain is a unit of six beta chains, combined into a homo-hexamer. It is involved in self/non-self recognition of cells, through binding with carbohydrates []. It is sometimes found in association with the C-terminal domain of coagulation factor F5/8 (IPR000421 from INTERPRO). ; GO: 0005529 sugar binding, 0007155 cell adhesion; PDB: 2CGY_A 2CGZ_A 2CCV_A 2CE6_A 2VME_B 2VMC_A 2VMD_A 2VM9_A 2W94_A 2WN3_C ....
Probab=40.11 E-value=17 Score=19.85 Aligned_cols=25 Identities=28% Similarity=0.274 Sum_probs=17.3
Q ss_pred ceEEEEEeEEEccccceeeeeeeee
Q 035056 30 DFLRIDFNMSFPSLPCEFASIDVSN 54 (74)
Q Consensus 30 ~~l~In~DItfp~~pC~~lsvDv~D 54 (74)
...+|+|+-.|.+.|.=.+++.-.|
T Consensus 3 ~~~~I~F~~~F~~~P~V~~~i~~~d 27 (72)
T PF09458_consen 3 YSQTITFSKPFSSPPQVIVSINGLD 27 (72)
T ss_dssp EEEEEE-SS--SS--EEEEEEEEEE
T ss_pred eEEEeEcChhcCCCCEEEEEEEEEE
Confidence 3578999999999999999999888
No 8
>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....
Probab=40.11 E-value=17 Score=24.51 Aligned_cols=18 Identities=17% Similarity=0.342 Sum_probs=12.5
Q ss_pred ccceeeeeeeeecCCceeec
Q 035056 43 LPCEFASIDVSNVLGTVSYS 62 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~ 62 (74)
.-++.+|+|++| |.-..|
T Consensus 24 ~g~d~lHiDiMD--g~fvpn 41 (201)
T PF00834_consen 24 AGADWLHIDIMD--GHFVPN 41 (201)
T ss_dssp TT-SEEEEEEEB--SSSSSS
T ss_pred cCCCEEEEeecc--cccCCc
Confidence 347899999999 654433
No 9
>PRK08005 epimerase; Validated
Probab=39.34 E-value=16 Score=24.95 Aligned_cols=19 Identities=11% Similarity=0.165 Sum_probs=14.4
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..++++|+|++| |.-..|+
T Consensus 25 ~g~d~lHiDvMD--G~FVPN~ 43 (210)
T PRK08005 25 APLGSLHLDIED--TSFINNI 43 (210)
T ss_pred CCCCEEEEeccC--CCcCCcc
Confidence 468899999999 6655443
No 10
>PF13944 Lipocalin_6: Lipocalin-like domain; PDB: 3RWX_A.
Probab=38.56 E-value=37 Score=21.06 Aligned_cols=18 Identities=17% Similarity=0.385 Sum_probs=14.1
Q ss_pred CCceEEEEEeEEEccccc
Q 035056 28 DGDFLRIDFNMSFPSLPC 45 (74)
Q Consensus 28 ~~~~l~In~DItfp~~pC 45 (74)
.++++.+++++.+++||=
T Consensus 101 ~dgkl~~~i~v~~~~m~~ 118 (125)
T PF13944_consen 101 EDGKLTITIDVKVGGMPM 118 (125)
T ss_dssp ETTEEEEEEEEEETT-SS
T ss_pred ECCEEEEEEEEEeCCcce
Confidence 448899999999988774
No 11
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=36.84 E-value=19 Score=24.48 Aligned_cols=19 Identities=16% Similarity=0.221 Sum_probs=14.8
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..|+++|+|++| |.-..|+
T Consensus 31 ~~~~~~H~DimD--g~fvpn~ 49 (228)
T PTZ00170 31 GGADWLHVDVMD--GHFVPNL 49 (228)
T ss_pred cCCCEEEEeccc--CccCCCc
Confidence 468899999999 7665554
No 12
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=32.95 E-value=22 Score=24.65 Aligned_cols=19 Identities=16% Similarity=0.153 Sum_probs=14.4
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..+.++|+|++| |.-..|+
T Consensus 37 ~g~d~lHiDVMD--G~FVPNi 55 (228)
T PRK08091 37 NQLRLLHFDIAD--GQFSPFF 55 (228)
T ss_pred CCCCEEEEeccC--CCcCCcc
Confidence 457899999999 7655544
No 13
>PF12544 LAM_C: Lysine-2,3-aminomutase ; PDB: 2A5H_D.
Probab=30.93 E-value=75 Score=20.42 Aligned_cols=33 Identities=15% Similarity=0.108 Sum_probs=19.9
Q ss_pred hhhhccccceEEEEEEcCCCCCceEEEEEeEEE
Q 035056 8 ELNNYLTVTTSTAVIVDKSTDGDFLRIDFNMSF 40 (74)
Q Consensus 8 E~~~y~~~~~~~~l~VD~~~~~~~l~In~DItf 40 (74)
.++.++++-....++||...+..|+.+.-+.-.
T Consensus 3 ~LRGhtSGlAvPtyVvD~PGGgGKvPl~P~Yli 35 (127)
T PF12544_consen 3 SLRGHTSGLAVPTYVVDAPGGGGKVPLMPNYLI 35 (127)
T ss_dssp TTCTTC-GGG--EEEEEETTTTEEEE-----EE
T ss_pred cccccccccccceEEEECCCCCCCcccCCceEE
Confidence 467778888899999999987788776655443
No 14
>PRK14057 epimerase; Provisional
Probab=29.51 E-value=28 Score=24.61 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=14.2
Q ss_pred ccceeeeeeeeecCCceeecc
Q 035056 43 LPCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 43 ~pC~~lsvDv~D~~G~~~~~i 63 (74)
..++++|+|++| |.-..|+
T Consensus 44 ~g~d~lHiDVMD--G~FVPNi 62 (254)
T PRK14057 44 LNQPLLHLDLMD--GQFCPQF 62 (254)
T ss_pred CCCCEEEEeccC--CccCCcc
Confidence 357899999999 7655543
No 15
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=29.08 E-value=29 Score=24.18 Aligned_cols=18 Identities=22% Similarity=0.314 Sum_probs=13.3
Q ss_pred cceeeeeeeeecCCceeecc
Q 035056 44 PCEFASIDVSNVLGTVSYSS 63 (74)
Q Consensus 44 pC~~lsvDv~D~~G~~~~~i 63 (74)
.-.++|+|++| |.-..|+
T Consensus 29 gad~iH~DVMD--ghFVPNi 46 (220)
T COG0036 29 GADLIHIDVMD--GHFVPNI 46 (220)
T ss_pred CCCEEEEeccC--CCcCCCc
Confidence 34789999999 7665554
No 16
>PF03404 Mo-co_dimer: Mo-co oxidoreductase dimerisation domain; InterPro: IPR005066 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This domain is found in molybdopterin cofactor oxidoreductases, such as in the C-terminal of Mo-containing sulphite oxidase, which catalyses the conversion of sulphite to sulphate, the terminal step in the oxidative degradation of cysteine and methionine []. This domain is involved in dimer formation, and has an Ig-fold structure [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2C9X_A 2CA3_A 2BLF_A 2CA4_A 2BPB_A 2XTS_C 2BII_A 2BIH_A 1OGP_A 2A9A_B ....
Probab=29.08 E-value=1.1e+02 Score=19.20 Aligned_cols=31 Identities=13% Similarity=0.063 Sum_probs=22.9
Q ss_pred EEEEEeEEEcc-ccceeeeeeeeecCCceeec
Q 035056 32 LRIDFNMSFPS-LPCEFASIDVSNVLGTVSYS 62 (74)
Q Consensus 32 l~In~DItfp~-~pC~~lsvDv~D~~G~~~~~ 62 (74)
-.-.++++++. .-.+.|-+.+.|.+|..|..
T Consensus 78 ~~W~~~~~~~~~~G~~~i~~RA~D~~G~~QP~ 109 (131)
T PF03404_consen 78 RLWEYDWPPPSLPGEYTIMVRATDESGNVQPE 109 (131)
T ss_dssp EEEEEEEEECSHCCEEEEEEEEEETTS-B--S
T ss_pred ceeeeccCcCccccceEEEEEEeecccccCCC
Confidence 35778888877 56779999999999998754
No 17
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=25.36 E-value=1.4e+02 Score=16.80 Aligned_cols=28 Identities=7% Similarity=0.153 Sum_probs=21.5
Q ss_pred EEEEEeEEEccccceeeeeeeeecCCcee
Q 035056 32 LRIDFNMSFPSLPCEFASIDVSNVLGTVS 60 (74)
Q Consensus 32 l~In~DItfp~~pC~~lsvDv~D~~G~~~ 60 (74)
....+.+++ .-++.-+.+.+.|..|+..
T Consensus 12 ~~~~~~~~l-~~~a~~v~v~I~d~~G~~V 39 (81)
T PF13860_consen 12 TKGSIEYTL-PEDADNVTVTIYDSNGQVV 39 (81)
T ss_dssp CEEEEEEEE-CSSCEEEEEEEEETTS-EE
T ss_pred EEEEEEEeC-CCcccEEEEEEEcCCCCEE
Confidence 566777777 4778888999999999864
Done!