Query psy7988
Match_columns 73
No_of_seqs 116 out of 552
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 23:55:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7988.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7988hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1567|consensus 99.9 7.7E-24 1.7E-28 158.4 3.2 60 14-73 285-344 (344)
2 PTZ00211 ribonucleoside-diphos 99.7 6.8E-17 1.5E-21 119.7 3.9 60 14-73 271-330 (330)
3 PLN02492 ribonucleoside-diphos 99.7 8.1E-17 1.8E-21 118.9 4.0 60 14-73 260-324 (324)
4 PRK07209 ribonucleotide-diphos 99.4 9.4E-14 2E-18 104.6 3.0 46 14-59 319-366 (369)
5 PRK12759 bifunctional gluaredo 99.3 1E-12 2.2E-17 100.1 3.0 47 14-60 354-402 (410)
6 PRK09101 nrdB ribonucleotide-d 99.3 1.7E-12 3.8E-17 98.1 2.7 54 14-67 315-371 (376)
7 PRK09614 nrdF ribonucleotide-d 99.2 6.7E-12 1.5E-16 92.3 2.4 45 14-58 266-314 (324)
8 COG0208 NrdF Ribonucleotide re 99.1 3.9E-11 8.5E-16 91.0 2.9 47 14-60 291-339 (348)
9 PRK13966 nrdF2 ribonucleotide- 99.1 4.8E-11 1E-15 88.8 2.8 52 14-73 265-322 (324)
10 PRK13965 ribonucleotide-diphos 99.0 1.5E-10 3.3E-15 86.4 2.1 52 14-73 276-333 (335)
11 PRK13967 nrdF1 ribonucleotide- 98.7 8.8E-09 1.9E-13 76.6 2.9 46 14-59 263-313 (322)
12 cd01049 RNRR2 Ribonucleotide R 96.7 0.00091 2E-08 47.9 1.9 25 14-38 261-287 (288)
13 PF00268 Ribonuc_red_sm: Ribon 96.5 0.0017 3.6E-08 46.9 1.9 22 14-35 260-281 (281)
14 PF08795 DUF1796: Putative pap 69.5 3.6 7.7E-05 27.9 1.8 26 8-36 9-34 (167)
15 PF01552 Pico_P2B: Picornaviru 59.6 5 0.00011 26.0 1.0 20 12-36 65-84 (99)
16 KOG1606|consensus 59.6 6.2 0.00013 29.7 1.6 32 6-37 217-254 (296)
17 COG0214 SNZ1 Pyridoxine biosyn 38.7 24 0.00051 26.9 1.9 32 6-37 216-253 (296)
18 PF07274 DUF1440: Protein of u 25.5 48 0.001 22.5 1.5 27 10-36 25-56 (135)
19 cd01579 AcnA_Bact_Swivel Bacte 24.1 42 0.00091 22.1 1.0 21 5-25 60-80 (121)
20 cd01577 IPMI_Swivel Aconatase- 24.0 42 0.00091 21.2 1.0 20 5-24 29-48 (91)
21 PRK14812 hypothetical protein; 23.7 46 0.00099 22.0 1.1 20 5-24 2-21 (119)
22 TIGR02084 leud 3-isopropylmala 21.0 52 0.0011 22.6 1.0 20 5-24 59-78 (156)
No 1
>KOG1567|consensus
Probab=99.88 E-value=7.7e-24 Score=158.43 Aligned_cols=60 Identities=57% Similarity=0.832 Sum_probs=58.1
Q ss_pred HHHHHcCCCcccCCCCCcchhhhccccccccchhhhhhhhhhccccccCCCceeeecCCC
Q psy7988 14 ALTRYCFVLQHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~NPf~Wme~is~~~ktNFFE~rVt~Yqk~~~~~~~~~~~f~~deDF 73 (73)
.||.+||++|+|+++|||+|||.||++|||||||+||++|||++++++..+++|++|+||
T Consensus 285 rLL~~lG~~K~Yn~~NPFdfMEnISl~GKTNFFEKrVseYQk~~vMs~~~~~~F~ld~dF 344 (344)
T KOG1567|consen 285 RLLVELGNEKYYNAENPFDFMENISLAGKTNFFEKRVSEYQKAGVMSNEPENVFTLDADF 344 (344)
T ss_pred HHHHHhCccceecCCCchHHHHHhhhccccchHHhhhHHhhhchhccCCccceeccccCC
Confidence 589999999999999999999999999999999999999999999998888899999998
No 2
>PTZ00211 ribonucleoside-diphosphate reductase small subunit; Provisional
Probab=99.65 E-value=6.8e-17 Score=119.69 Aligned_cols=60 Identities=53% Similarity=0.852 Sum_probs=53.4
Q ss_pred HHHHHcCCCcccCCCCCcchhhhccccccccchhhhhhhhhhccccccCCCceeeecCCC
Q psy7988 14 ALTRYCFVLQHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~NPf~Wme~is~~~ktNFFE~rVt~Yqk~~~~~~~~~~~f~~deDF 73 (73)
.+|..||++++|+++||++||+.++.+++|||||+||++|++++......+.+|+||+||
T Consensus 271 ~~l~~lG~~~~f~~~nP~~w~~~~~~~~~tnFFe~~~t~Y~k~~~~~~~~~~~~~~~~df 330 (330)
T PTZ00211 271 RLLVALGVPKIYNSKNPFDWMDMISLQGKTNFFEKRVGEYQKAGVMAERTSKVFSLDADF 330 (330)
T ss_pred HHHHHCCCCCcCCCCCCchHHHhccccccccccccchhhhhccccccccccccccccCCC
Confidence 479999999999999999999988888999999999999999987643335579999998
No 3
>PLN02492 ribonucleoside-diphosphate reductase
Probab=99.65 E-value=8.1e-17 Score=118.90 Aligned_cols=60 Identities=57% Similarity=0.827 Sum_probs=53.3
Q ss_pred HHHHHcCCCcccCCCCCcchhhhccccccccchhhhhhhhhhccccccC-----CCceeeecCCC
Q psy7988 14 ALTRYCFVLQHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQ-----DNQVFRLDEQF 73 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~NPf~Wme~is~~~ktNFFE~rVt~Yqk~~~~~~~-----~~~~f~~deDF 73 (73)
.+|.+||++++|++.||++||+.++..+||||||+||++|++++++.+. .+.+|++|+||
T Consensus 260 ~~L~~lG~~~~f~~~nP~~w~~~~~~~~~tnFFe~~~t~Y~k~~~~~~~~~~~~~~~~~~~~~df 324 (324)
T PLN02492 260 RLLVALGYEKVYNVVNPFDWMELISLQGKTNFFEKRVGEYQKAGVMSSLNGGGADNHVFSLDEDF 324 (324)
T ss_pred HHHHHcCCCCcCCCCCCchHHHhccccccccccccchhhhhcccccccccccccccceeccCCCC
Confidence 5799999999999999999999988889999999999999999875533 24469999998
No 4
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=99.41 E-value=9.4e-14 Score=104.63 Aligned_cols=46 Identities=37% Similarity=0.541 Sum_probs=41.9
Q ss_pred HHHHHcCCCccc-CCCCCcchh-hhccccccccchhhhhhhhhhcccc
Q psy7988 14 ALTRYCFVLQHY-FAENPFDFM-ENISLEGKTNFFERKVGEYQKSSVM 59 (73)
Q Consensus 14 ~ll~~lG~~kiY-~~~NPf~Wm-e~is~~~ktNFFE~rVt~Yqk~~~~ 59 (73)
..|.+||++++| +++||++|| +.+++++++||||+||++||+++++
T Consensus 319 rrL~~LG~~~~y~~~~nP~~wm~~~~~~~~~tnFFE~rvt~Y~~~~~~ 366 (369)
T PRK07209 319 RRLQQIGLKPQYPGTENPFPWMSEMIDLKKEKNFFETRVIEYQTGGAL 366 (369)
T ss_pred HHHHHCCCCCCCCCCCCcHhHHHHHhcccccCcccccchhhhhcccCc
Confidence 479999999999 999999999 6678889999999999999998854
No 5
>PRK12759 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
Probab=99.31 E-value=1e-12 Score=100.12 Aligned_cols=47 Identities=28% Similarity=0.393 Sum_probs=41.3
Q ss_pred HHHHHcCCCcccCC-CCCcchhhhccc-cccccchhhhhhhhhhccccc
Q psy7988 14 ALTRYCFVLQHYFA-ENPFDFMENISL-EGKTNFFERKVGEYQKSSVMA 60 (73)
Q Consensus 14 ~ll~~lG~~kiY~~-~NPf~Wme~is~-~~ktNFFE~rVt~Yqk~~~~~ 60 (73)
..|.+||++++|++ +||++||+.+.. .+++||||+||++|+++++..
T Consensus 354 ~~L~~LG~~~~f~~~~nP~~w~~~~~~~~~~~nFFE~rvt~Y~~~~~~~ 402 (410)
T PRK12759 354 RRLNQLGLKEIYNIEKNPLTWLEWILNGADHTNFFENRVTEYEVAGLTG 402 (410)
T ss_pred HHHHHcCCCCCCCCCCCChhHHHHHhccccccCCccccHHHHhhccccc
Confidence 47999999999997 899999987654 579999999999999998654
No 6
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=99.28 E-value=1.7e-12 Score=98.09 Aligned_cols=54 Identities=11% Similarity=0.153 Sum_probs=45.4
Q ss_pred HHHHHcCCCcccCC-CCCcchhhh-ccccc-cccchhhhhhhhhhccccccCCCcee
Q psy7988 14 ALTRYCFVLQHYFA-ENPFDFMEN-ISLEG-KTNFFERKVGEYQKSSVMADQDNQVF 67 (73)
Q Consensus 14 ~ll~~lG~~kiY~~-~NPf~Wme~-is~~~-ktNFFE~rVt~Yqk~~~~~~~~~~~f 67 (73)
.+|.+||++++|++ +||++||+. +++++ ++||||+||++|+++++..+.++++|
T Consensus 315 ~rL~~LG~~~~f~~~~nP~~wm~~~~~~~~~~~nffE~~~~~Y~~~~~~~~~~~~~~ 371 (376)
T PRK09101 315 IRMQAVGLDLPFQTRSNPIPWINAWLVSDNVQVAPQEVEVSSYLVGQIDSEVDTDDL 371 (376)
T ss_pred HHHHHCCCCCCCCCCCCCHHHHHHHhcCCccccccccccHHHHhhccCcccCChhhh
Confidence 57999999999997 899999965 56666 99999999999999998766555443
No 7
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=99.20 E-value=6.7e-12 Score=92.29 Aligned_cols=45 Identities=18% Similarity=0.118 Sum_probs=39.1
Q ss_pred HHHHHcCCCcccC--CCCCcchhhhccc-c-ccccchhhhhhhhhhccc
Q psy7988 14 ALTRYCFVLQHYF--AENPFDFMENISL-E-GKTNFFERKVGEYQKSSV 58 (73)
Q Consensus 14 ~ll~~lG~~kiY~--~~NPf~Wme~is~-~-~ktNFFE~rVt~Yqk~~~ 58 (73)
..|..||++++|+ ++||++||+..+. . .++||||+||++|+++++
T Consensus 266 ~~L~~lG~~~~f~~~~~np~~w~~~~~~~~~~~~nFFe~~~~~Y~~~~~ 314 (324)
T PRK09614 266 KRLMNLGLEPLFPEEEEVNPIWLNGLSNNADENHDFFEGKGTSYVKGAT 314 (324)
T ss_pred HHHHHCCCCCCCCCCCCCChHHHHHhccCCCeecCCCcCCccceeeccc
Confidence 4799999999995 8999999988743 3 589999999999999874
No 8
>COG0208 NrdF Ribonucleotide reductase, beta subunit [Nucleotide transport and metabolism]
Probab=99.11 E-value=3.9e-11 Score=90.97 Aligned_cols=47 Identities=38% Similarity=0.510 Sum_probs=41.5
Q ss_pred HHHHHcCCCcccCCC-CCcchhhh-ccccccccchhhhhhhhhhccccc
Q psy7988 14 ALTRYCFVLQHYFAE-NPFDFMEN-ISLEGKTNFFERKVGEYQKSSVMA 60 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~-NPf~Wme~-is~~~ktNFFE~rVt~Yqk~~~~~ 60 (73)
..|.+||++++|..+ ||++||+. ++..+|+||||++|++|+++++++
T Consensus 291 krL~~lG~~~~y~~~~NP~~~~~~~~~~~~~~dFFe~~~ssY~~~~~~~ 339 (348)
T COG0208 291 KRLQNLGLEPLYPAEENPIPWIELSLSADEKTDFFEGRVSSYQKGSVAS 339 (348)
T ss_pred HHHHHcCCCCCCCCCCCchHHHHhhccccccCCccccccchHHhhhccc
Confidence 468999999999876 99999987 566799999999999999998654
No 9
>PRK13966 nrdF2 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=99.09 E-value=4.8e-11 Score=88.82 Aligned_cols=52 Identities=15% Similarity=0.170 Sum_probs=41.8
Q ss_pred HHHHHcCCCcccCC----CCCcchhhhcccc--ccccchhhhhhhhhhccccccCCCceeeecCCC
Q psy7988 14 ALTRYCFVLQHYFA----ENPFDFMENISLE--GKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73 (73)
Q Consensus 14 ~ll~~lG~~kiY~~----~NPf~Wme~is~~--~ktNFFE~rVt~Yqk~~~~~~~~~~~f~~deDF 73 (73)
..|.+||++++|+. .||+ ||...+.. .++||||+||++|+|+++ ++..|+||
T Consensus 265 ~~L~~lG~e~~f~~~~~~~nP~-~~~~~~~~~~~~~dFFe~r~t~Y~k~~~-------~~~~ddd~ 322 (324)
T PRK13966 265 KALMNLGYEALFPRDETDVNPA-ILSALSPNADENHDFFSGSGSSYVIGKA-------VVTEDDDW 322 (324)
T ss_pred HHHHHCCCCCCCCCCcCCCCCh-hHHhhccccccccCCCCCCCcccccccc-------ccccccCc
Confidence 47999999999976 6997 57555654 699999999999999874 55567665
No 10
>PRK13965 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=99.00 E-value=1.5e-10 Score=86.44 Aligned_cols=52 Identities=13% Similarity=0.215 Sum_probs=40.1
Q ss_pred HHHHHcCCCcccCCC----CC--cchhhhccccccccchhhhhhhhhhccccccCCCceeeecCCC
Q psy7988 14 ALTRYCFVLQHYFAE----NP--FDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~----NP--f~Wme~is~~~ktNFFE~rVt~Yqk~~~~~~~~~~~f~~deDF 73 (73)
.+|.+||++++|++. || ++||+. ...+++||||+|+++|+++++ +..+|+||
T Consensus 276 ~~L~~LG~~~~f~~~~~~~~p~~~~~~~~-~~~~~~dFFe~~~t~Y~~~~~-------~~~~d~d~ 333 (335)
T PRK13965 276 KFLQNLGYESPFTEEETRVSPEVFAQLSA-RADENHDFFSGNGSSYVMGIT-------EETTDDDW 333 (335)
T ss_pred HHHHHCCCCCCCCCCCCCCCcHHHHhhCc-cccccCCCCCCCCCcCeeccc-------cccccccc
Confidence 479999999999766 66 556652 346799999999999999874 44556665
No 11
>PRK13967 nrdF1 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=98.70 E-value=8.8e-09 Score=76.61 Aligned_cols=46 Identities=7% Similarity=0.005 Sum_probs=35.5
Q ss_pred HHHHHcCCCcccCCC-CCc-chh-hhcccc--ccccchhhhhhhhhhcccc
Q psy7988 14 ALTRYCFVLQHYFAE-NPF-DFM-ENISLE--GKTNFFERKVGEYQKSSVM 59 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~-NPf-~Wm-e~is~~--~ktNFFE~rVt~Yqk~~~~ 59 (73)
..|.+||++++|+.. +|. ||| +.+++. .++||||+|+++|+|+++.
T Consensus 263 ~rL~~LGl~~~f~~~~~~~nP~~~~~~~~~~~~~~dFFe~r~t~Y~k~~~~ 313 (322)
T PRK13967 263 KALANLGYQPAFDRDTCQVNPAVRAALDPGAGENHDFFSGSGSSYVMGTHQ 313 (322)
T ss_pred HHHHHCCCCCCCCCCCCCCCcHHHHhhccccCccCCCCCCCCccccccCcc
Confidence 368999999999653 664 667 334543 4899999999999998653
No 12
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=96.71 E-value=0.00091 Score=47.92 Aligned_cols=25 Identities=32% Similarity=0.373 Sum_probs=22.2
Q ss_pred HHHHHcCCCcccCC--CCCcchhhhcc
Q psy7988 14 ALTRYCFVLQHYFA--ENPFDFMENIS 38 (73)
Q Consensus 14 ~ll~~lG~~kiY~~--~NPf~Wme~is 38 (73)
..|.+||++++|++ .||++||+.++
T Consensus 261 ~~l~~lG~~~~f~~~~~nP~~~~~~~~ 287 (288)
T cd01049 261 RRLENLGLEKLFNVEDKNPFDWMELIS 287 (288)
T ss_pred HHHHHCCCCCCCCCCCCCCHHHHHHhc
Confidence 47899999999988 89999998764
No 13
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=96.46 E-value=0.0017 Score=46.88 Aligned_cols=22 Identities=36% Similarity=0.380 Sum_probs=18.3
Q ss_pred HHHHHcCCCcccCCCCCcchhh
Q psy7988 14 ALTRYCFVLQHYFAENPFDFME 35 (73)
Q Consensus 14 ~ll~~lG~~kiY~~~NPf~Wme 35 (73)
..|..||++++|+++||++||+
T Consensus 260 ~~L~~lG~~~~y~~~~~~~~~~ 281 (281)
T PF00268_consen 260 RRLRNLGFEPIYNVENPFPWME 281 (281)
T ss_dssp HHHHHTTS--SSTTCCSSTTHC
T ss_pred HHHHHCCCCCCCCCCCCCCCCC
Confidence 3689999999999999999995
No 14
>PF08795 DUF1796: Putative papain-like cysteine peptidase (DUF1796); InterPro: IPR014903 The proteins in this entry are uncharacterised; but are related to papain-like cysteine peptidases.
Probab=69.54 E-value=3.6 Score=27.95 Aligned_cols=26 Identities=19% Similarity=0.144 Sum_probs=21.9
Q ss_pred CCcchHHHHHHcCCCcccCCCCCcchhhh
Q psy7988 8 SRTHDLALTRYCFVLQHYFAENPFDFMEN 36 (73)
Q Consensus 8 ~~~~~~~ll~~lG~~kiY~~~NPf~Wme~ 36 (73)
+.-+++-.|+.+|+++ ..-||+||-.
T Consensus 9 ~~C~~a~~L~k~~lr~---~s~PfDW~~s 34 (167)
T PF08795_consen 9 SNCGPAYQLKKLGLRK---FSGPFDWMFS 34 (167)
T ss_pred CcCHHHHHHHHcCCCC---CCCCceeccC
Confidence 4567899999999994 5899999965
No 15
>PF01552 Pico_P2B: Picornavirus 2B protein; InterPro: IPR002527 Poliovirus infection leads to drastic alterations in membrane permeability late during infection. Proteins 2B and 2BC enhance membrane permeability [, ].; GO: 0000166 nucleotide binding, 0003968 RNA-directed RNA polymerase activity, 0005198 structural molecule activity, 0008233 peptidase activity, 0008234 cysteine-type peptidase activity, 0016740 transferase activity, 0016779 nucleotidyltransferase activity, 0016787 hydrolase activity, 0018144 RNA-protein covalent cross-linking, 0019012 virion
Probab=59.64 E-value=5 Score=26.04 Aligned_cols=20 Identities=15% Similarity=0.154 Sum_probs=16.6
Q ss_pred hHHHHHHcCCCcccCCCCCcchhhh
Q psy7988 12 DLALTRYCFVLQHYFAENPFDFMEN 36 (73)
Q Consensus 12 ~~~ll~~lG~~kiY~~~NPf~Wme~ 36 (73)
-+|.|.-|||. ..||.||-.
T Consensus 65 v~AtLaLLGcd-----~sPw~~LK~ 84 (99)
T PF01552_consen 65 VLATLALLGCD-----GSPWRWLKS 84 (99)
T ss_pred HHHHHHHhccC-----CCHHHHHHH
Confidence 46778889999 899999943
No 16
>KOG1606|consensus
Probab=59.56 E-value=6.2 Score=29.67 Aligned_cols=32 Identities=19% Similarity=0.106 Sum_probs=24.2
Q ss_pred CCCCcchHHHHHHcCCCccc------CCCCCcchhhhc
Q psy7988 6 GKSRTHDLALTRYCFVLQHY------FAENPFDFMENI 37 (73)
Q Consensus 6 ~~~~~~~~~ll~~lG~~kiY------~~~NPf~Wme~i 37 (73)
|-..|-|++|+.+|||+-+| .+.+|+.-...|
T Consensus 217 GvaTPADAALmMQLGCdGVFVGSgiFks~dP~k~a~ai 254 (296)
T KOG1606|consen 217 GVATPADAALMMQLGCDGVFVGSGIFKSGDPVKRARAI 254 (296)
T ss_pred CcCChhHHHHHHHcCCCeEEeccccccCCCHHHHHHHH
Confidence 55678999999999999988 356776544433
No 17
>COG0214 SNZ1 Pyridoxine biosynthesis enzyme [Coenzyme metabolism]
Probab=38.70 E-value=24 Score=26.87 Aligned_cols=32 Identities=22% Similarity=0.101 Sum_probs=26.0
Q ss_pred CCCCcchHHHHHHcCCCccc------CCCCCcchhhhc
Q psy7988 6 GKSRTHDLALTRYCFVLQHY------FAENPFDFMENI 37 (73)
Q Consensus 6 ~~~~~~~~~ll~~lG~~kiY------~~~NPf~Wme~i 37 (73)
|-..|-|++|+.+||++-+| .++||-..-..|
T Consensus 216 GvATPADAALMM~LGadGVFVGSGIFKS~~P~~~A~AI 253 (296)
T COG0214 216 GVATPADAALMMQLGADGVFVGSGIFKSSNPEKRAKAI 253 (296)
T ss_pred CcCChhHHHHHHHhCCCeEEecccccCCCCHHHHHHHH
Confidence 55678999999999999887 588997766554
No 18
>PF07274 DUF1440: Protein of unknown function (DUF1440); InterPro: IPR009898 This family contains a number of bacterial proteins of unknown function approximately 180 residues long. These are possibly integral membrane proteins.
Probab=25.54 E-value=48 Score=22.51 Aligned_cols=27 Identities=7% Similarity=0.137 Sum_probs=20.4
Q ss_pred cchHHHHHHcCCCcc----c-CCCCCcchhhh
Q psy7988 10 THDLALTRYCFVLQH----Y-FAENPFDFMEN 36 (73)
Q Consensus 10 ~~~~~ll~~lG~~ki----Y-~~~NPf~Wme~ 36 (73)
.=|..+|++||.+.- | .+.+.++|+..
T Consensus 25 nPP~~~L~~lgi~~~t~~~y~~s~~~~~~~~~ 56 (135)
T PF07274_consen 25 NPPQVLLQQLGIPDKTHATYTYSGHEVPWVSF 56 (135)
T ss_pred CCHHHHHHHcCCCCCCCceEEEcCCeeeeehh
Confidence 347899999999643 4 46778999874
No 19
>cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known.
Probab=24.13 E-value=42 Score=22.06 Aligned_cols=21 Identities=29% Similarity=0.222 Sum_probs=18.4
Q ss_pred CCCCCcchHHHHHHcCCCccc
Q psy7988 5 AGKSRTHDLALTRYCFVLQHY 25 (73)
Q Consensus 5 ~~~~~~~~~~ll~~lG~~kiY 25 (73)
.|.||.|-+..|+.+|.+.+-
T Consensus 60 ~GSSRE~A~~al~~~Gi~aVI 80 (121)
T cd01579 60 QGSSREHAALAPMYLGVRAVL 80 (121)
T ss_pred CCccHHHHHHHHHHHCCCEEE
Confidence 488999999999999998764
No 20
>cd01577 IPMI_Swivel Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-isopropylmalate. IPMI is involved in fungal and bacterial leucine biosynthesis and is also found in eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=24.02 E-value=42 Score=21.20 Aligned_cols=20 Identities=20% Similarity=0.089 Sum_probs=17.9
Q ss_pred CCCCCcchHHHHHHcCCCcc
Q psy7988 5 AGKSRTHDLALTRYCFVLQH 24 (73)
Q Consensus 5 ~~~~~~~~~~ll~~lG~~ki 24 (73)
.|.||.|-+.-|+.+|.+.+
T Consensus 29 ~GSSRE~A~~al~~~Gi~av 48 (91)
T cd01577 29 CGSSREHAPWALKDAGIRAV 48 (91)
T ss_pred CCCcHHHHHHHHHHhCCCEE
Confidence 58999999999999999865
No 21
>PRK14812 hypothetical protein; Provisional
Probab=23.74 E-value=46 Score=22.02 Aligned_cols=20 Identities=25% Similarity=-0.002 Sum_probs=18.1
Q ss_pred CCCCCcchHHHHHHcCCCcc
Q psy7988 5 AGKSRTHDLALTRYCFVLQH 24 (73)
Q Consensus 5 ~~~~~~~~~~ll~~lG~~ki 24 (73)
.|.||.|-.--|+..|.+.+
T Consensus 2 cGSSREhA~wAL~~~Gi~aV 21 (119)
T PRK14812 2 AGSSREHAAWALADYGFKVV 21 (119)
T ss_pred CCCcHHHHHHHHHHcCCCEE
Confidence 59999999999999999865
No 22
>TIGR02084 leud 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The members of the seed for this model are those sequences which are gene clustered with other genes involved in leucine biosynthesis and include some archaea.
Probab=20.98 E-value=52 Score=22.58 Aligned_cols=20 Identities=20% Similarity=0.115 Sum_probs=17.7
Q ss_pred CCCCCcchHHHHHHcCCCcc
Q psy7988 5 AGKSRTHDLALTRYCFVLQH 24 (73)
Q Consensus 5 ~~~~~~~~~~ll~~lG~~ki 24 (73)
.|.||.|-+..|+.+|.+.+
T Consensus 59 ~GSSRE~A~~al~~~Gi~aV 78 (156)
T TIGR02084 59 CGSSREHAPIAIKASGISCV 78 (156)
T ss_pred CCCcHHHHHHHHHHhCCCEE
Confidence 58899999999999998854
Done!