Query 045319
Match_columns 149
No_of_seqs 134 out of 221
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 12:04:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045319.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045319hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01568 A_thal_3678 uncharac 100.0 7.3E-37 1.6E-41 213.3 7.6 65 66-130 1-66 (66)
2 PF04844 Ovate: Transcriptiona 100.0 8.7E-35 1.9E-39 198.8 7.1 59 72-130 1-59 (59)
3 smart00544 MA3 Domain in DAP-5 82.7 2.5 5.5E-05 30.0 4.2 47 79-127 1-47 (113)
4 PF02979 NHase_alpha: Nitrile 56.7 21 0.00046 29.8 4.5 48 76-123 5-53 (188)
5 PF02847 MA3: MA3 domain; Int 55.4 18 0.00039 25.4 3.4 46 79-126 1-46 (113)
6 cd00982 gltB_C gltb_C. This do 51.3 13 0.00028 32.0 2.5 60 63-125 179-242 (251)
7 PRK10072 putative transcriptio 47.8 32 0.0007 25.3 3.8 31 72-102 3-42 (96)
8 TIGR01323 nitrile_alph nitrile 46.6 38 0.00082 28.4 4.4 43 81-123 4-47 (185)
9 PF10273 WGG: Pre-rRNA-process 42.1 50 0.0011 23.4 4.0 37 71-107 28-64 (82)
10 PF04994 TfoX_C: TfoX C-termin 40.7 41 0.00089 23.8 3.3 31 81-111 13-45 (81)
11 PF14551 MCM_N: MCM N-terminal 38.9 86 0.0019 21.9 4.8 51 79-129 18-74 (121)
12 PF08887 GAD-like: GAD-like do 32.4 16 0.00034 27.5 0.1 47 81-127 34-94 (109)
13 PF05400 FliT: Flagellar prote 31.8 39 0.00085 22.2 2.0 23 86-108 1-23 (84)
14 PRK10548 flagellar biosynthesi 31.1 78 0.0017 24.2 3.7 53 75-127 10-70 (121)
15 PF09388 SpoOE-like: Spo0E lik 30.1 1.4E+02 0.0031 18.6 4.3 32 77-108 7-44 (45)
16 cd03154 TM4SF3_like_LEL Tetras 28.9 70 0.0015 21.8 2.9 39 66-104 2-46 (100)
17 COG0337 AroB 3-dehydroquinate 28.8 94 0.002 28.2 4.4 46 72-118 170-218 (360)
18 PRK11104 hemG protoporphyrinog 24.7 1.3E+02 0.0028 23.5 4.1 33 79-111 133-176 (177)
19 PF10723 RepB-RCR_reg: Replica 24.4 1.2E+02 0.0026 21.8 3.6 31 77-107 50-80 (84)
20 PF08684 ocr: DNA mimic ocr; 24.1 1.4E+02 0.003 22.8 3.9 52 72-123 2-57 (101)
21 PF09832 DUF2059: Uncharacteri 23.6 73 0.0016 20.7 2.1 28 78-107 4-31 (64)
22 cd00595 NDPk Nucleoside diphos 23.4 2.2E+02 0.0048 21.2 5.0 39 65-105 3-51 (133)
23 PF04716 ETC_C1_NDUFA5: ETC co 23.1 86 0.0019 21.1 2.4 27 78-104 26-57 (57)
24 PF12315 DUF3633: Protein of u 22.2 1.7E+02 0.0036 25.0 4.5 30 98-127 98-132 (212)
25 cd04418 NDPk5 Nucleoside dipho 21.5 2.7E+02 0.006 21.0 5.2 37 65-104 3-48 (132)
26 COG3643 Glutamate formiminotra 21.5 1.4E+02 0.0029 26.7 3.9 33 92-124 267-299 (302)
27 PF02337 Gag_p10: Retroviral G 21.3 1.6E+02 0.0036 21.7 3.8 32 78-109 9-41 (90)
28 TIGR02908 CoxD_Bacillus cytoch 21.0 89 0.0019 24.0 2.4 26 102-127 72-97 (110)
29 PF02211 NHase_beta: Nitrile h 20.6 3.4E+02 0.0073 22.9 6.0 36 73-108 66-101 (222)
30 PF10415 FumaraseC_C: Fumarase 20.3 1.1E+02 0.0025 20.2 2.5 26 81-106 26-51 (55)
31 PF06761 IcmF-related: Intrace 20.2 3.9E+02 0.0085 22.4 6.3 40 93-132 70-111 (312)
No 1
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=100.00 E-value=7.3e-37 Score=213.27 Aligned_cols=65 Identities=57% Similarity=0.865 Sum_probs=62.6
Q ss_pred EEEEeeCcchHHHHHHHHHHHHHHcCC-CChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHhhhcC
Q 045319 66 VALAIDSEDAYSDFRRSMEEMVEAYGL-KYWEHLEELLALFLRMNKKKNHGIIVGAFIDIFSQGIS 130 (149)
Q Consensus 66 vAVvk~S~DPy~DFR~SM~EMI~e~gi-~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl~~~l~s 130 (149)
|||+|+|.|||.|||+||+|||+++|+ .+|++|||||+|||+||+++||++|++||+|||.+|++
T Consensus 1 vAv~k~S~DPy~DFr~SM~EMI~~~~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~dl~~~L~~ 66 (66)
T TIGR01568 1 VAVAKESDDPYEDFRRSMEEMIEERELEADWKELEELLACYLDLNPKKSHRFIVRAFVDILSALLS 66 (66)
T ss_pred CeeeeCCCChHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHHHHHHHHhC
Confidence 699999999999999999999999999 57999999999999999999999999999999999874
No 2
>PF04844 Ovate: Transcriptional repressor, ovate; InterPro: IPR006458 This group of sequences contain an uncharacterised domain of about 70 residues found exclusively in plants, generally toward the C terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana (Mouse-ear cress). Other regions of these proteins tend to consist largely of low-complexity sequence. Function is not known.
Probab=100.00 E-value=8.7e-35 Score=198.84 Aligned_cols=59 Identities=47% Similarity=0.847 Sum_probs=57.5
Q ss_pred CcchHHHHHHHHHHHHHHcCCCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHhhhcC
Q 045319 72 SEDAYSDFRRSMEEMVEAYGLKYWEHLEELLALFLRMNKKKNHGIIVGAFIDIFSQGIS 130 (149)
Q Consensus 72 S~DPy~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl~~~l~s 130 (149)
|.|||+|||+||+|||+++|+++|++|||||+|||+||+++||++|++||+|||.++++
T Consensus 1 S~DP~~DFr~SM~EMI~~~~i~~~~~LeeLL~cYL~LN~~~~H~~Iv~aF~dv~~~l~s 59 (59)
T PF04844_consen 1 SSDPYEDFRESMVEMIEENGIRDWDDLEELLACYLSLNSPEHHKFIVEAFVDVWVELFS 59 (59)
T ss_pred CCCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCChhhhhHHHHHHHHHHHHHhC
Confidence 78999999999999999999999999999999999999999999999999999999874
No 3
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=82.69 E-value=2.5 Score=29.97 Aligned_cols=47 Identities=13% Similarity=0.223 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHcCCCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHhh
Q 045319 79 FRRSMEEMVEAYGLKYWEHLEELLALFLRMNKKKNHGIIVGAFIDIFSQ 127 (149)
Q Consensus 79 FR~SM~EMI~e~gi~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl~~~ 127 (149)
||+.+...|.+.- ...+.+|...|...||.+++|+.++...+..+.+
T Consensus 1 ~~k~i~~~l~ey~--~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le 47 (113)
T smart00544 1 LKKKIFLIIEEYL--SSGDTDEAVHCLLELKLPEQHHEVVKVLLTCALE 47 (113)
T ss_pred ChhHHHHHHHHHH--HcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHc
Confidence 5677777776531 1247788889999999887887777766665543
No 4
>PF02979 NHase_alpha: Nitrile hydratase, alpha chain; InterPro: IPR004232 Nitrile hydratases (4.2.1.84 from EC) are bacterial enzymes that catalyse the hydration of nitrile compounds to the corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and are normally active as a tetramer, alpha(2)beta(2). Nitrile hydratases contain either a non-haem iron or a non-corrinoid cobalt centre, both types sharing a highly conserved peptide sequence in the alpha subunit (CXLCSC) that provides all the residues involved in coordinating the metal ion. Each type of nitrile hydratase specifically incorporated its metal with the help of activator proteins encoded by flanking regions of the nitrile hydratase genes that are necessary for metal insertion. The Fe-containing enzyme is photo-regulated: in the dark the enzyme is inactivated due to the association of nitric oxide (NO) to the iron, while in the light the enzyme is active by photo-dissociation of NO. The NO is held in place by a claw setting formed through specific oxygen atoms in two modified cysteines and a serine residue in the active site [, ]. The cobalt-containing enzyme is unaffected by NO, but was shown to undergo a similar effect with carbon monoxide [, ]. Fe- and cobalt-containing enzymes also display different inhibition patterns with nitrophenols. Thiocyanate hydrolase (SCNase) is a cobalt-containing metalloenzyme with a cysteine-sulphinic acid ligand that hydrolyses thiocyanate to carbonyl sulphide and ammonia []. The two enzymes, nitrile hydratase and SCNase, are homologous over regions corresponding to almost the entire coding regions of the genes: the beta and alpha subunits of thiocyanate hydrolase were homologous to the amino- and carboxyl-terminal halves of the beta subunit of nitrile hydratase, and the gamma subunit of thiocyanate hydrolase was homologous to the alpha subunit of nitrile hydratase []. This entry represents the structural domain of the alpha subunit of both iron- and cobalt-containing nitrile hydratases; the alpha subunit is a duplication of two structural repeats, each consisting of 4 layers, alpha/beta/beta/alpha []. This structure is also found in the related protein, the gamma subunit of thiocyanate hydrolase (SCNase).; GO: 0003824 catalytic activity, 0046914 transition metal ion binding, 0006807 nitrogen compound metabolic process; PDB: 2DPP_A 3HHT_A 1V29_A 2ZZD_I 2DXC_F 2DXB_F 2DD5_C 2DD4_C 2ZPH_A 2CYZ_A ....
Probab=56.68 E-value=21 Score=29.79 Aligned_cols=48 Identities=13% Similarity=0.252 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHcCCCChhHHHHHHHHHHHc-CCCCchhhHHHHHHH
Q 045319 76 YSDFRRSMEEMVEAYGLKYWEHLEELLALFLRM-NKKKNHGIIVGAFID 123 (149)
Q Consensus 76 y~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~L-N~~~~H~~Iv~AF~D 123 (149)
+..--+-++++..++|+.+.++++.++..|-+. +++..-++|-+|.+|
T Consensus 5 ~~~~~~al~~ll~ekg~~~~~~~~~~~~~~~~~~~P~~GarvVArAW~D 53 (188)
T PF02979_consen 5 IAARVRALESLLIEKGLITPAEVDRIIETYESRVGPRNGARVVARAWTD 53 (188)
T ss_dssp HHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHTSSHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccCccccceeehhhhCC
Confidence 344457789999999999999999999999998 777778888888776
No 5
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=55.38 E-value=18 Score=25.40 Aligned_cols=46 Identities=11% Similarity=0.184 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHcCCCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 045319 79 FRRSMEEMVEAYGLKYWEHLEELLALFLRMNKKKNHGIIVGAFIDIFS 126 (149)
Q Consensus 79 FR~SM~EMI~e~gi~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl~~ 126 (149)
||+.+...|.+.= .-.+.+|...|-..||.+.+|+.++......+.
T Consensus 1 ~rk~i~~~l~ey~--~~~d~~ea~~~l~el~~~~~~~~vv~~~l~~~l 46 (113)
T PF02847_consen 1 LRKKIFSILMEYF--SSGDVDEAVECLKELKLPSQHHEVVKVILECAL 46 (113)
T ss_dssp HHHHHHHHHHHHH--HHT-HHHHHHHHHHTT-GGGHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHh--cCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHh
Confidence 5667666666531 113667777777778777666666665555443
No 6
>cd00982 gltB_C gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the transfer of ammonia and electrons among three distinct active centers that carry out L-Gln hydrolysis, conversion of 2-oxoglutarate into L-Glu, and electron uptake from a donor. These catalytic sites appear to occur in other domains within the protein, and not the domain in this CD. This particular domain has no known function, but it likely has a structural role as it interacts with the amidotransferase and FMN-binding domains of gltS.
Probab=51.31 E-value=13 Score=32.01 Aligned_cols=60 Identities=23% Similarity=0.294 Sum_probs=44.4
Q ss_pred cceEEEEeeCcchHHHHHH-HHHHHHHHcCCC---ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 045319 63 KDCVALAIDSEDAYSDFRR-SMEEMVEAYGLK---YWEHLEELLALFLRMNKKKNHGIIVGAFIDIF 125 (149)
Q Consensus 63 ~~svAVvk~S~DPy~DFR~-SM~EMI~e~gi~---d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl~ 125 (149)
..+++++. ||..+|.+ --.+||.-..+. +|++|++||..|+..-..+..+.|+.-|.+..
T Consensus 179 ~gG~iyv~---~~~~~~~~~~n~~~V~~~~l~~~~d~~~l~~ll~~h~~~t~s~~a~~iL~~~~~~~ 242 (251)
T cd00982 179 SGGVAYVL---DEDGDFEKKVNHEMVDLERLEDAEDEEQLKELIEEHVEYTGSEKAKEILANWEAYL 242 (251)
T ss_pred CCCEEEEE---CCcCChhhhcCHhhEeeccCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHhHHHHh
Confidence 45666664 66667753 234666644454 78999999999999999999999999887654
No 7
>PRK10072 putative transcriptional regulator; Provisional
Probab=47.82 E-value=32 Score=25.27 Aligned_cols=31 Identities=19% Similarity=0.236 Sum_probs=23.7
Q ss_pred CcchHHHHHHHHHHHHHHcCC---C------ChhHHHHHH
Q 045319 72 SEDAYSDFRRSMEEMVEAYGL---K------YWEHLEELL 102 (149)
Q Consensus 72 S~DPy~DFR~SM~EMI~e~gi---~------d~~~LeELL 102 (149)
=.||..|..+||.|||+++|- + ...++++|.
T Consensus 3 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~eik~LR 42 (96)
T PRK10072 3 YKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLR 42 (96)
T ss_pred cCCHHHHHHHHHHHHHHhcCCccceeecccCChHHHHHHH
Confidence 369999999999999997772 1 455666663
No 8
>TIGR01323 nitrile_alph nitrile hydratase, alpha subunit. This model describes both iron- and cobalt-containing nitrile hydratase alpha chains. It excludes the thiocyanate hydrolase gamma subunit of Thiobacillus thioparus, a sequence that appears to have evolved from within the family of nitrile hydratase alpha subunits but which differs by several indels and a more rapid accumulation of point mutations.
Probab=46.58 E-value=38 Score=28.35 Aligned_cols=43 Identities=16% Similarity=0.388 Sum_probs=36.3
Q ss_pred HHHHHHHHHcCCCChhHHHHHHHHHHH-cCCCCchhhHHHHHHH
Q 045319 81 RSMEEMVEAYGLKYWEHLEELLALFLR-MNKKKNHGIIVGAFID 123 (149)
Q Consensus 81 ~SM~EMI~e~gi~d~~~LeELL~cYL~-LN~~~~H~~Iv~AF~D 123 (149)
+-++++..++|+.+.++++.++..|-. ..+..--+++-+|.+|
T Consensus 4 ~Ale~ll~eKGli~~~~id~~i~~~~~~~gP~nGA~vVArAW~D 47 (185)
T TIGR01323 4 KALEQVLKSKGLIPEGAVDQLTSLYENEWGPENGAKVVAKAWVD 47 (185)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHhccCCcchhhhhhHHhcC
Confidence 457889999999999999999999999 5777777777777655
No 9
>PF10273 WGG: Pre-rRNA-processing protein TSR2; InterPro: IPR019398 The pre-rRNA-processing protein TSR2 is required for 20S pre-rRNA processing []. This family contains a distinctive WGG motif.
Probab=42.09 E-value=50 Score=23.42 Aligned_cols=37 Identities=14% Similarity=0.115 Sum_probs=29.1
Q ss_pred eCcchHHHHHHHHHHHHHHcCCCChhHHHHHHHHHHH
Q 045319 71 DSEDAYSDFRRSMEEMVEAYGLKYWEHLEELLALFLR 107 (149)
Q Consensus 71 ~S~DPy~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~ 107 (149)
+|.+-...|...+.++...+.-.+.++||++|.-||.
T Consensus 28 ~s~~K~~~l~~~i~~~f~~~~~~~~~~le~~L~~~m~ 64 (82)
T PF10273_consen 28 DSQEKADWLAEVIVDWFTENKDPDADDLEDFLEDIMD 64 (82)
T ss_pred cHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence 3566677788888888888766779999999998883
No 10
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=40.68 E-value=41 Score=23.81 Aligned_cols=31 Identities=29% Similarity=0.491 Sum_probs=24.1
Q ss_pred HHHHHHHHHcCCCChhHHHHH--HHHHHHcCCC
Q 045319 81 RSMEEMVEAYGLKYWEHLEEL--LALFLRMNKK 111 (149)
Q Consensus 81 ~SM~EMI~e~gi~d~~~LeEL--L~cYL~LN~~ 111 (149)
.-|++|..+-||.+.++|+++ -.||+.|-..
T Consensus 13 ~~~e~~L~~vGI~t~~~L~~~Ga~~a~~~Lk~~ 45 (81)
T PF04994_consen 13 PKSERMLAKVGIHTVEDLRELGAVEAYLRLKAS 45 (81)
T ss_dssp HHHHHHHHHTT--SHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCHHHHHHhCHHHHHHHHHHH
Confidence 458899999999999999998 6788887644
No 11
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=38.86 E-value=86 Score=21.89 Aligned_cols=51 Identities=18% Similarity=0.155 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHcCC---CChhHHHH---HHHHHHHcCCCCchhhHHHHHHHHHhhhc
Q 045319 79 FRRSMEEMVEAYGL---KYWEHLEE---LLALFLRMNKKKNHGIIVGAFIDIFSQGI 129 (149)
Q Consensus 79 FR~SM~EMI~e~gi---~d~~~LeE---LL~cYL~LN~~~~H~~Iv~AF~Dl~~~l~ 129 (149)
+++.+.+|+..+.- -+|++|.+ =|+-.|.-|+.++..++-+|..+++..+.
T Consensus 18 Y~~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~a~~~~~~~~~ 74 (121)
T PF14551_consen 18 YMDQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEEALKEVVKELF 74 (121)
T ss_dssp CHHHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHHHHHHCHHTT-
T ss_pred HHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45677777776432 47888866 78999999999999999999999988754
No 12
>PF08887 GAD-like: GAD-like domain; InterPro: IPR014983 This domain is functionally uncharacterised, but it appears to be distantly related to the GAD domain IPR004115 from INTERPRO.
Probab=32.43 E-value=16 Score=27.54 Aligned_cols=47 Identities=21% Similarity=0.300 Sum_probs=39.0
Q ss_pred HHHHHHHHHcCC----------CChhHHHHHHHHHHH----cCCCCchhhHHHHHHHHHhh
Q 045319 81 RSMEEMVEAYGL----------KYWEHLEELLALFLR----MNKKKNHGIIVGAFIDIFSQ 127 (149)
Q Consensus 81 ~SM~EMI~e~gi----------~d~~~LeELL~cYL~----LN~~~~H~~Iv~AF~Dl~~~ 127 (149)
+.+.+.-.++|. .++++.+++|..-+. .+.+.+|.+...||-||++.
T Consensus 34 ~~Ll~~W~~~G~g~~~dG~f~~vnP~dy~~vl~~~~~~~~~~~~~~~~~ia~tAFGdl~~w 94 (109)
T PF08887_consen 34 DELLEYWKEYGFGGYGDGLFWLVNPDDYEDVLDEWLGGTPLFDPDNYIPIARTAFGDLYVW 94 (109)
T ss_pred HHHHHHHHHcCCchhcCcEEEEECHHHHHHHHHHHhcCCccccCceEEEEEEcccccEEEE
Confidence 467777777764 579999999998886 78899999999999998653
No 13
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=31.77 E-value=39 Score=22.23 Aligned_cols=23 Identities=43% Similarity=0.533 Sum_probs=16.3
Q ss_pred HHHHcCCCChhHHHHHHHHHHHc
Q 045319 86 MVEAYGLKYWEHLEELLALFLRM 108 (149)
Q Consensus 86 MI~e~gi~d~~~LeELL~cYL~L 108 (149)
|+..-.-.+|+.|.+|+..|-.+
T Consensus 1 ml~aa~~~dWe~l~~l~~~R~~l 23 (84)
T PF05400_consen 1 MLEAAEAGDWEELEELLDERQEL 23 (84)
T ss_dssp HHHHHHCT-HHHHHHHHHHHHHH
T ss_pred ChHHHhhCcHHHHHHHHHHHHHH
Confidence 44444567999999999987653
No 14
>PRK10548 flagellar biosynthesis protein FliT; Provisional
Probab=31.11 E-value=78 Score=24.23 Aligned_cols=53 Identities=11% Similarity=0.174 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHHcCCCChhHHHHHHHHHHHcC--------CCCchhhHHHHHHHHHhh
Q 045319 75 AYSDFRRSMEEMVEAYGLKYWEHLEELLALFLRMN--------KKKNHGIIVGAFIDIFSQ 127 (149)
Q Consensus 75 Py~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~LN--------~~~~H~~Iv~AF~Dl~~~ 127 (149)
=|.+--..-.+|++...-.+|+.|=+|-..|+.+= +......+.+.+++++..
T Consensus 10 ~Yq~I~~lS~~ML~aA~~g~Wd~Li~lE~~y~~~Ve~l~~~~~~~~l~~~~q~~~~~lL~~ 70 (121)
T PRK10548 10 AWQQILTLSQSMLRLATEGQWDELIEQEVAYVQAVEEIAHLTIPPDISTVMQEQLRPMLRQ 70 (121)
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHH
Confidence 46777777899999998999999999999998651 223444555555555443
No 15
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=30.15 E-value=1.4e+02 Score=18.59 Aligned_cols=32 Identities=25% Similarity=0.523 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHcCCCChh------HHHHHHHHHHHc
Q 045319 77 SDFRRSMEEMVEAYGLKYWE------HLEELLALFLRM 108 (149)
Q Consensus 77 ~DFR~SM~EMI~e~gi~d~~------~LeELL~cYL~L 108 (149)
..-|+-|.+++..+|+.+.+ .|-+|+..|..+
T Consensus 7 e~~R~~L~~~~~~~~l~~~~vl~~Sq~LD~lI~~y~~~ 44 (45)
T PF09388_consen 7 EELRQELNELAEKKGLTDPEVLELSQELDKLINEYQKL 44 (45)
T ss_dssp HHHHHHHHHHHHHCCTTCHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhh
Confidence 35688999999999998754 667788887653
No 16
>cd03154 TM4SF3_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF3_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contaions transmembrane 4 superfamily 3 (TM4SF3) or D6.1a and related proteins. D6.1a associates with alpha6beta4 integrin and supports cell motility, it has been ascribed a role in tumor progression and metastasis.
Probab=28.91 E-value=70 Score=21.85 Aligned_cols=39 Identities=10% Similarity=0.181 Sum_probs=25.4
Q ss_pred EEEEeeCcchHHHHHHHHHHHHHHcCCC------ChhHHHHHHHH
Q 045319 66 VALAIDSEDAYSDFRRSMEEMVEAYGLK------YWEHLEELLAL 104 (149)
Q Consensus 66 vAVvk~S~DPy~DFR~SM~EMI~e~gi~------d~~~LeELL~c 104 (149)
|+....-..-...+++.|.+.|...+-. .|+.||+-|.|
T Consensus 2 i~~~v~r~~i~~~i~~~~~~~i~~y~~~~~~~~~~~d~lQ~~l~C 46 (100)
T cd03154 2 IVGAVYKPKIENELKEKNTKLLSLLGQNAKSVKKSLEKFQKELKC 46 (100)
T ss_pred EEEEEeHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCC
Confidence 3344455666788899999998874432 26666666665
No 17
>COG0337 AroB 3-dehydroquinate synthetase [Amino acid transport and metabolism]
Probab=28.75 E-value=94 Score=28.21 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=30.3
Q ss_pred CcchHHHHHHHHHHHHHHcCCCCh---hHHHHHHHHHHHcCCCCchhhHH
Q 045319 72 SEDAYSDFRRSMEEMVEAYGLKYW---EHLEELLALFLRMNKKKNHGIIV 118 (149)
Q Consensus 72 S~DPy~DFR~SM~EMI~e~gi~d~---~~LeELL~cYL~LN~~~~H~~Iv 118 (149)
..=|.++||.=|.|+|.--=|.|. ++||+-+.+..+++. ....+|-
T Consensus 170 ~TLp~re~~~G~AEvIK~g~I~D~~~f~~Le~~~~~l~~~~~-~l~~~I~ 218 (360)
T COG0337 170 KTLPPRELRAGMAEVIKYGLIADPEFFDWLEENLDALLALDP-ALEELIA 218 (360)
T ss_pred ccCCHHHHHHhHHHHHHHhhhcCHHHHHHHHHHHHHHHhcch-HHHHHHH
Confidence 467999999999999987667674 455554445554444 2444443
No 18
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=24.71 E-value=1.3e+02 Score=23.52 Aligned_cols=33 Identities=21% Similarity=0.442 Sum_probs=25.1
Q ss_pred HHHHHHHHHHH-----------cCCCChhHHHHHHHHHHHcCCC
Q 045319 79 FRRSMEEMVEA-----------YGLKYWEHLEELLALFLRMNKK 111 (149)
Q Consensus 79 FR~SM~EMI~e-----------~gi~d~~~LeELL~cYL~LN~~ 111 (149)
|-|.|+.||.. ...+||+.+++...-...|+.+
T Consensus 133 ~~r~~~~~i~k~~~~~~~~~~~~~~~dw~~v~~fa~~~~~~~~~ 176 (177)
T PRK11104 133 FDRFMIKLIMKMTGGETDTSKEVEYTDWEQVANFAREFAQLTDK 176 (177)
T ss_pred HHHHHHHHHHHHcCCCCCCCCceeeCCHHHHHHHHHHHHhhccc
Confidence 44588888774 2257899999999888888765
No 19
>PF10723 RepB-RCR_reg: Replication regulatory protein RepB; InterPro: IPR019661 This family of proteins regulates the replication of rolling circle replication (RCR) plasmids that have a double-strand replication origin (dso). Regulation of the replication of the RCR plasmids occurs mainly at the initiation of leading strand synthesis at the dso, such that concentration of Rep protein controls plasmid replication []. ; PDB: 2KEL_B.
Probab=24.43 E-value=1.2e+02 Score=21.80 Aligned_cols=31 Identities=26% Similarity=0.444 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHcCCCChhHHHHHHHHHHH
Q 045319 77 SDFRRSMEEMVEAYGLKYWEHLEELLALFLR 107 (149)
Q Consensus 77 ~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~ 107 (149)
.+.++-+.+|-.+.|+.-.+-+|.|+..|+.
T Consensus 50 ~~~K~~L~~lc~~~GlTQae~IE~LI~~~~~ 80 (84)
T PF10723_consen 50 NELKERLEELCKEQGLTQAEMIERLIKSELQ 80 (84)
T ss_dssp HHHHHHHHHHHHHS---HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence 3678889999999999999999999999874
No 20
>PF08684 ocr: DNA mimic ocr; InterPro: IPR014798 The structure of an Ocr protein from bacteriophage T7 has shown that this protein mimics the size and shape of a bent DNA molecule []. Ocr has also been shown to be an inhibitor of the complex type I DNA restriction enzymes []. ; PDB: 1S7Z_A 2Y7C_E.
Probab=24.14 E-value=1.4e+02 Score=22.80 Aligned_cols=52 Identities=8% Similarity=0.054 Sum_probs=34.2
Q ss_pred CcchHHHHHHHHHHHHHH----cCCCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 045319 72 SEDAYSDFRRSMEEMVEA----YGLKYWEHLEELLALFLRMNKKKNHGIIVGAFID 123 (149)
Q Consensus 72 S~DPy~DFR~SM~EMI~e----~gi~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~D 123 (149)
+..-|.+.-.+-.||..| -.|++-+++.+-|.--..-|-|.+-+-|..+|++
T Consensus 2 ~~~ty~~l~a~a~e~~~e~Iryd~i~~~DD~~DaiHe~~d~~VPhyy~diFtVmA~ 57 (101)
T PF08684_consen 2 NANTYYELYAAAVEALNERIRYDDITETDDYSDAIHEVADSNVPHYYHDIFTVMAA 57 (101)
T ss_dssp ----HHHHHHHHHHHHHHHHHHTT---GGG-HHHHHHHHHHHS--SHHHHHHHHTS
T ss_pred CcchHHHHHHHHHHHHHHHhhhhcccccchHHHHHHHHhccCCchhhHHHHHHhhc
Confidence 345677777777777766 4889999999999988889999999988888864
No 21
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=23.60 E-value=73 Score=20.66 Aligned_cols=28 Identities=18% Similarity=0.209 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHcCCCChhHHHHHHHHHHH
Q 045319 78 DFRRSMEEMVEAYGLKYWEHLEELLALFLR 107 (149)
Q Consensus 78 DFR~SM~EMI~e~gi~d~~~LeELL~cYL~ 107 (149)
+|+.-|.+...+ ..+.++|++|+.+|=+
T Consensus 4 ~~~~~~~~~y~~--~ft~~El~~i~~FY~S 31 (64)
T PF09832_consen 4 KMIDQMAPIYAE--HFTEEELDAILAFYES 31 (64)
T ss_dssp HHHHHHHHHHHH--HS-HHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHH--HCCHHHHHHHHHHHCC
Confidence 444444444443 3588999999999943
No 22
>cd00595 NDPk Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are vital for DNA/RNA synthesis, cell division, macromolecular metabolism and growth. The enzymes generate NTPs or their deoxy derivatives by terminal (gamma) phosphotransfer from an NTP such as ATP or GTP to any nucleoside diphosphate (NDP) or its deoxy derivative. The sequence of NDPk has been highly conserved through evolution. There is a single histidine residue conserved in all known NDK isozymes, which is involved in the catalytic mechanism. The first confirmed metastasis suppressor gene was the NDP kinase protein encoded by the nm23 gene. Unicellular organisms generally possess only one gene encoding NDP kinase, while most multicellular organisms possess not only an ortholog that provides most of the NDP kinase enzymatic a
Probab=23.40 E-value=2.2e+02 Score=21.22 Aligned_cols=39 Identities=23% Similarity=0.204 Sum_probs=27.4
Q ss_pred eEEEEeeCcchHHH-HHHHHHHHHHHcCC---------CChhHHHHHHHHH
Q 045319 65 CVALAIDSEDAYSD-FRRSMEEMVEAYGL---------KYWEHLEELLALF 105 (149)
Q Consensus 65 svAVvk~S~DPy~D-FR~SM~EMI~e~gi---------~d~~~LeELL~cY 105 (149)
++||+| +|-... ....++++|+++|+ -+.+..+++...|
T Consensus 3 tl~iIK--Pd~~~~~~~g~Il~~i~~~Gf~I~~~k~~~lt~~~a~~~Y~~~ 51 (133)
T cd00595 3 TLALIK--PDAVAEGLLGEIIMRIEDAGFEIVAMKELHLTEEQAEEFYVEH 51 (133)
T ss_pred EEEEEC--chHHhcCcHHHHHHHHHHcCCEEEEeeeecCCHHHHHHHHHHh
Confidence 567776 555543 56789999999986 3678888875544
No 23
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=23.14 E-value=86 Score=21.14 Aligned_cols=27 Identities=15% Similarity=0.220 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHc-----CCCChhHHHHHHHH
Q 045319 78 DFRRSMEEMVEAY-----GLKYWEHLEELLAL 104 (149)
Q Consensus 78 DFR~SM~EMI~e~-----gi~d~~~LeELL~c 104 (149)
.+|++.++++..+ .-.|++.+|+.+.|
T Consensus 26 ~YR~~tE~it~~Rl~iv~~~~d~~~iE~~i~c 57 (57)
T PF04716_consen 26 AYRQYTEAITKHRLKIVEEEEDIEKIEKKIGC 57 (57)
T ss_pred HHHHHHHHHHHHHHHHHHccccHHHHHHHhCc
Confidence 5788988888763 35789999998877
No 24
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=22.25 E-value=1.7e+02 Score=24.98 Aligned_cols=30 Identities=23% Similarity=0.320 Sum_probs=22.5
Q ss_pred HHHHHHHHHHcCCCCchhh-----HHHHHHHHHhh
Q 045319 98 LEELLALFLRMNKKKNHGI-----IVGAFIDIFSQ 127 (149)
Q Consensus 98 LeELL~cYL~LN~~~~H~~-----Iv~AF~Dl~~~ 127 (149)
-+||..+||.||.-..-.. |-++++=+|..
T Consensus 98 AHE~mHa~Lrl~g~~~L~~~vEEGiCqvla~~wL~ 132 (212)
T PF12315_consen 98 AHELMHAWLRLNGFPNLSPEVEEGICQVLAYLWLE 132 (212)
T ss_pred HHHHHHHHhcccCCCCCChHHHHHHHHHHHHHHHh
Confidence 4799999999998554333 45678888887
No 25
>cd04418 NDPk5 Nucleoside diphosphate kinase homolog 5 (NDP kinase homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is almost exclusively found in testis, especially in the flagella of spermatids and spermatozoa, in association with axoneme microtubules, and may play a role in spermatogenesis by increasing the ability of late-stage spermatids to eliminate reactive oxygen species. It belongs to the nm23 Group II genes and appears to differ from the other human NDPks in that it lacks two important catalytic site residues, and thus does not appear to possess NDP kinase activity. NDPk5 confers protection from cell death by Bax and alters the cellular levels of several antioxidant enzymes, including glutathione peroxidase 5 (Gpx5).
Probab=21.50 E-value=2.7e+02 Score=20.99 Aligned_cols=37 Identities=19% Similarity=0.240 Sum_probs=26.4
Q ss_pred eEEEEeeCcchHHHHHHHHHHHHHHcCC---------CChhHHHHHHHH
Q 045319 65 CVALAIDSEDAYSDFRRSMEEMVEAYGL---------KYWEHLEELLAL 104 (149)
Q Consensus 65 svAVvk~S~DPy~DFR~SM~EMI~e~gi---------~d~~~LeELL~c 104 (149)
++|++| +|-+.. +...+++|+++|+ -+.+..++++..
T Consensus 3 Tl~iIK--Pda~~~-~g~Il~~i~~~Gf~I~~~k~~~lt~~~a~~~y~~ 48 (132)
T cd04418 3 TLAIIK--PDAVHK-AEEIEDIILESGFTIVQKRKLQLSPEQCSDFYAE 48 (132)
T ss_pred EEEEEC--cHHHhh-HHHHHHHHHHCCCEEEEeeeecCCHHHHHHHHHH
Confidence 567776 666655 7788999999886 367777777544
No 26
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=21.47 E-value=1.4e+02 Score=26.71 Aligned_cols=33 Identities=12% Similarity=0.232 Sum_probs=27.9
Q ss_pred CCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 045319 92 LKYWEHLEELLALFLRMNKKKNHGIIVGAFIDI 124 (149)
Q Consensus 92 i~d~~~LeELL~cYL~LN~~~~H~~Iv~AF~Dl 124 (149)
+.-...|.+.+..||++|.-..|.+|.+-...+
T Consensus 267 l~P~~aL~d~~~yYL~~~g~d~~~~~~~k~~~~ 299 (302)
T COG3643 267 LVPEQALIDVAKYYLQLDGFDADKFIEDKILEL 299 (302)
T ss_pred cchHHHHHHHHHHHHhccccchhHHHHHHHHHH
Confidence 345788999999999999999999998766554
No 27
>PF02337 Gag_p10: Retroviral GAG p10 protein; InterPro: IPR003322 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from beta-retroviruses such as Mason-Pfizer monkey virus (MPMV) (Simian Mason-Pfizer virus) and Mouse mammary tumor virus (MMTV) [, ]. This entry also identifies matrix proteins from several eukaryotic endogenous retroviruses, which arise when one or more copies of the retroviral genome becomes integrated into the host genome [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2F77_X 2F76_X.
Probab=21.35 E-value=1.6e+02 Score=21.66 Aligned_cols=32 Identities=13% Similarity=0.310 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHcCCC-ChhHHHHHHHHHHHcC
Q 045319 78 DFRRSMEEMVEAYGLK-YWEHLEELLALFLRMN 109 (149)
Q Consensus 78 DFR~SM~EMI~e~gi~-d~~~LeELL~cYL~LN 109 (149)
=|...|..|+.++||+ .+++|.+++.---..|
T Consensus 9 ~fv~~Lk~lLk~rGi~v~~~~L~~f~~~i~~~~ 41 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVKKKDLINFLSFIDKVC 41 (90)
T ss_dssp HHHHHHHHHHHCCT----HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCeeecHHHHHHHHHHHHHhC
Confidence 4788999999999984 7888887765443333
No 28
>TIGR02908 CoxD_Bacillus cytochrome c oxidase, subunit IVB. This model represents a small clade of cytochrome oxidase subunit IV's found in the Bacilli.
Probab=21.02 E-value=89 Score=24.04 Aligned_cols=26 Identities=19% Similarity=0.221 Sum_probs=21.5
Q ss_pred HHHHHHcCCCCchhhHHHHHHHHHhh
Q 045319 102 LALFLRMNKKKNHGIIVGAFIDIFSQ 127 (149)
Q Consensus 102 L~cYL~LN~~~~H~~Iv~AF~Dl~~~ 127 (149)
|.|||.+|.+.+...++-.|.-+.+.
T Consensus 72 L~yFLHm~~k~~~~~~~~if~gi~va 97 (110)
T TIGR02908 72 LYYFMHMKDKGHEVPAQFIYGGVFVT 97 (110)
T ss_pred HHHheeeCCCccchHHHHHHHHHHHH
Confidence 67999999999998888777777665
No 29
>PF02211 NHase_beta: Nitrile hydratase beta subunit; InterPro: IPR024690 Nitrile hydratases (EC:4.2.1.84) are unusual metalloenzymes that catalyse the hydration of nitriles to their corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and they contain one iron atom per alpha beta unit []. This entry represents the structural domain of nitrile hydratase beta subunit which contains irregular array of helices in the N-terminal extension.; GO: 0018822 nitrile hydratase activity; PDB: 2DXB_H 2DD5_K 2DD4_H 2ZZD_B 2DXC_H 1AHJ_F 2ZPE_B 2ZCF_B 2D0Q_B 2CZ7_B ....
Probab=20.61 E-value=3.4e+02 Score=22.85 Aligned_cols=36 Identities=17% Similarity=0.208 Sum_probs=26.8
Q ss_pred cchHHHHHHHHHHHHHHcCCCChhHHHHHHHHHHHc
Q 045319 73 EDAYSDFRRSMEEMVEAYGLKYWEHLEELLALFLRM 108 (149)
Q Consensus 73 ~DPy~DFR~SM~EMI~e~gi~d~~~LeELL~cYL~L 108 (149)
.+=|+-....++.|+.++|+.+.++|++........
T Consensus 66 ~~YYe~Wl~ale~lLvekG~it~~EL~ar~~~~~~~ 101 (222)
T PF02211_consen 66 WSYYERWLAALEKLLVEKGVITAEELDARAGEWARP 101 (222)
T ss_dssp S-HHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHH-T
T ss_pred CcHHHHHHHHHHHHHHHcCCCCHHHHHHHHhhhhcc
Confidence 344778899999999999999999999984333333
No 30
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=20.29 E-value=1.1e+02 Score=20.19 Aligned_cols=26 Identities=42% Similarity=0.359 Sum_probs=19.7
Q ss_pred HHHHHHHHHcCCCChhHHHHHHHHHH
Q 045319 81 RSMEEMVEAYGLKYWEHLEELLALFL 106 (149)
Q Consensus 81 ~SM~EMI~e~gi~d~~~LeELL~cYL 106 (149)
+|..|.+.+.|+-+.+++++||.-.-
T Consensus 26 ~svre~v~~~g~lt~ee~d~ll~p~~ 51 (55)
T PF10415_consen 26 RSVREVVLEEGLLTEEELDELLDPER 51 (55)
T ss_dssp --HHHHHHHTTSS-HHHHHHHTSHHH
T ss_pred CCHHHHHHHcCCCCHHHHHHHcCHHH
Confidence 57889999999999999999986543
No 31
>PF06761 IcmF-related: Intracellular multiplication and human macrophage-killing; InterPro: IPR009612 This entry represents a conserved region within several bacterial proteins that resemble ImcF, which has been proposed [] to be involved in Vibrio cholerae cell surface reorganisation, resulting in increased adherence to epithelial cells and increased conjugation frequency. Note that many entry members are hypothetical proteins.
Probab=20.16 E-value=3.9e+02 Score=22.43 Aligned_cols=40 Identities=10% Similarity=0.140 Sum_probs=31.8
Q ss_pred CChhHHHHHHHHHHHcCCCCch--hhHHHHHHHHHhhhcCCC
Q 045319 93 KYWEHLEELLALFLRMNKKKNH--GIIVGAFIDIFSQGISSS 132 (149)
Q Consensus 93 ~d~~~LeELL~cYL~LN~~~~H--~~Iv~AF~Dl~~~l~ss~ 132 (149)
.+.+.+-|.|..||-|..++|- .++..-|...|.......
T Consensus 70 ~~~~~~y~aLk~YLML~~~~~~d~~~l~~w~~~~w~~~~~~~ 111 (312)
T PF06761_consen 70 DDPDALYEALKAYLMLTDPEHRDADFLKAWLAQDWQEQYPGQ 111 (312)
T ss_pred ccHHHHHHHHHHHHhcCCCccCCHHHHHHHHHHHHHHhCCCC
Confidence 8999999999999999987754 456677777777766554
Done!