Query 047658
Match_columns 229
No_of_seqs 88 out of 90
Neff 1.9
Searched_HMMs 46136
Date Fri Mar 29 13:21:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047658.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047658hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00041 photosystem I reactio 100.0 7E-101 1E-105 650.5 12.3 192 13-208 4-195 (196)
2 CHL00145 psaD photosystem I su 100.0 1.1E-94 2.4E-99 588.9 10.3 138 71-208 1-139 (139)
3 PF02531 PsaD: PsaD; InterPro 100.0 4.1E-94 8.9E-99 585.5 3.9 137 72-208 2-139 (139)
4 PF10787 YfmQ: Uncharacterised 67.6 2.9 6.2E-05 35.8 1.3 25 153-177 74-98 (149)
5 PF06883 RNA_pol_Rpa2_4: RNA p 49.8 11 0.00025 27.0 1.6 41 131-173 4-45 (58)
6 cd04700 DR1025_like DR1025 fro 45.3 1.1E+02 0.0023 23.5 6.5 70 72-144 2-71 (142)
7 PF03608 EII-GUT: PTS system e 38.2 8.7 0.00019 33.5 -0.5 42 134-182 79-120 (168)
8 PF14061 Mtf2_C: Polycomb-like 33.8 43 0.00093 24.4 2.5 21 151-171 26-48 (50)
9 PF10613 Lig_chan-Glu_bd: Liga 33.6 31 0.00068 25.2 1.8 32 135-167 21-52 (65)
10 COG5489 Uncharacterized conser 31.9 38 0.00081 27.9 2.2 36 69-109 71-106 (107)
11 COG4697 Uncharacterized protei 30.7 36 0.00077 32.3 2.1 50 153-208 127-185 (319)
12 TIGR00821 EII-GUT PTS system, 29.9 11 0.00023 33.3 -1.3 42 134-182 82-123 (181)
13 PF14326 DUF4384: Domain of un 28.0 85 0.0018 22.6 3.3 44 138-181 4-51 (83)
14 PF10189 DUF2356: Conserved pr 27.0 35 0.00077 30.8 1.4 27 198-224 51-89 (230)
15 cd00770 SerRS_core Seryl-tRNA 22.6 84 0.0018 27.6 2.9 58 83-161 149-206 (297)
16 cd04662 Nudix_Hydrolase_5 Memb 22.5 2.1E+02 0.0046 23.1 4.9 39 103-144 27-65 (126)
17 cd05810 CBM20_alpha_MTH Glucan 22.3 1E+02 0.0022 23.0 2.9 30 93-122 56-95 (97)
18 KOG2455 Delta-1-pyrroline-5-ca 21.6 24 0.00052 35.5 -0.7 22 150-172 239-265 (561)
19 PRK13744 conjugal transfer pro 20.6 1.5E+02 0.0032 23.2 3.6 40 65-115 20-59 (83)
20 cd01784 rasfadin_RA Ubiquitin- 20.4 96 0.0021 24.6 2.5 34 138-173 27-65 (87)
21 PLN02798 nitrilase 20.0 91 0.002 26.5 2.5 28 153-180 107-134 (286)
No 1
>PLN00041 photosystem I reaction center subunit II; Provisional
Probab=100.00 E-value=6.5e-101 Score=650.50 Aligned_cols=192 Identities=78% Similarity=1.166 Sum_probs=168.0
Q ss_pred ccccCCccccccCCCCCcceecCCCCccccchhhHHHHHhhhccCCCCCCCCCCCCCCCcCCCCCCCcccccCccccccc
Q 047658 13 ITTKTSKLLLNPWKPTSSFSFTSPKPLTFSMAQRTVRAAAAEEKTEAPTKEAPVGFTPPQLDPNTPSPIFGGSTGGLLRK 92 (229)
Q Consensus 13 ~t~~~~~~~~~p~k~~s~~s~~s~~~~~~~~~~~~~~a~~~~~~a~~~~~~ap~~f~pp~l~~~tp~P~FgGSTGGlLr~ 92 (229)
.+.+++.+...+|+++ ++++..+.....+..+..+++++++. ++++++|++|+||++|+++|+|+||||||||||+
T Consensus 4 ~~~as~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~t~~~~~l~~~~P~FgGSTGGlL~~ 79 (196)
T PLN00041 4 TTPASSGRKLVPWASF--LSKSTSKAPASLSATRAVRAAAAAEE--AAAKEAPVGFTPPTLNPNTPSPIFGGSTGGLLRK 79 (196)
T ss_pred cccccccceeeeeccc--cccccccccccccchhHHHHHhhhcc--cccccCCCCcCCcccCCCCCCCcccccchhhhhh
Confidence 3345666777899776 44444322223333333333333322 3677899999999999999999999999999999
Q ss_pred cccceeEEEEecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccccceeeeeeeeeecCCCceEeeccCCCCC
Q 047658 93 AQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVY 172 (229)
Q Consensus 93 A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVf 172 (229)
||+||||||||+|+|||||||||||||+||+|+|||||||||||||||+|||+||||||||||||||||+||||||||||
T Consensus 80 Ae~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLlylARKEQCLALgtQLrtkfKIdykiYRifP~Ge~q~LHPkDGVf 159 (196)
T PLN00041 80 AQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKITYQFYRVFPNGEVQYLHPKDGVY 159 (196)
T ss_pred hhhhhheEEEecCChhheeecCCchhhhhhcCchHHHHHHHHHHHHHHHHHhhhcccceeEEEEcCCCceEEecCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccCCCccccCcccccCCCCCCCceeeeccchhhh
Q 047658 173 PEKVNPGRQGVGVNYRSIGKNVSPIEHKTELKKFHK 208 (229)
Q Consensus 173 PEKVN~GR~~vg~~~r~IGkN~nP~~vKFsgk~t~d 208 (229)
|||||+||++||+|+|+||+|+||++||||||++||
T Consensus 160 PEKvN~GR~~vg~~~r~IG~N~nP~~vKFsgk~~yd 195 (196)
T PLN00041 160 PEKVNPGRVGVGQNMRSIGKNVNPIEVKFTGKQAYD 195 (196)
T ss_pred ccccCCcccccCCCCccccCCCCcceEEecCCccCC
Confidence 999999999999999999999999999999999998
No 2
>CHL00145 psaD photosystem I subunit II; Validated
Probab=100.00 E-value=1.1e-94 Score=588.92 Aligned_cols=138 Identities=70% Similarity=1.086 Sum_probs=136.2
Q ss_pred CcCCCCCCCcccccCccccccccccceeEEEEecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccccceee-
Q 047658 71 PQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKI- 149 (229)
Q Consensus 71 p~l~~~tp~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI- 149 (229)
+++++++++|+||||||||||+||+||||||||+|++||||||||||||+||+|+|||||||||||||||+|||+||||
T Consensus 1 m~~~l~~~~P~fgGSTGGlL~~Ae~EEkYaITWtS~keqvFEmPTGGAA~M~~G~NLlylARKEQclALgtQLrtkfKI~ 80 (139)
T CHL00145 1 MTLNLQMPSPTFGGSTGGWLRAAEVEEKYAITWTSPKEQIFEMPTGGAAIMRNGENLLYLARKEQCLALGTQLRTKFKIN 80 (139)
T ss_pred CccccCCCCccccccchhhhhcccceeeEEEEecCCccceeecCCchhhhhhcCchhhhhhHHHHHHHHHHHHhhccccc
Confidence 4689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeeeecCCCceEeeccCCCCCCcccCCCccccCcccccCCCCCCCceeeeccchhhh
Q 047658 150 KYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNYRSIGKNVSPIEHKTELKKFHK 208 (229)
Q Consensus 150 ~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFsgk~t~d 208 (229)
||||||||||||+|||||||||||||||+||+.||+++|+||+||||++||||||++||
T Consensus 81 dyKIYRifP~Ge~~~LhPkDGVfpEKvN~GR~~vg~~~r~IG~NpnP~~~KFsgk~tyd 139 (139)
T CHL00145 81 DYKIYRIFPNGEVQYLHPKDGVFPEKVNPGRVAVGSRDFSIGKNPNPASVKFTGKATYD 139 (139)
T ss_pred ccEEEEECCCCceEEecCCCCCCcccccCcccccCCCcccccCCCCcceEEecCccCCC
Confidence 89999999999999999999999999999999999999999999999999999999997
No 3
>PF02531 PsaD: PsaD; InterPro: IPR003685 PsaD is a small, extrinsic polypeptide located on the stromal side (cytoplasmic side in cyanobacteria) of the photosystem I reaction centre complex. It is required for native assembly of PSI reaction clusters and is implicated in the electrostatic binding of ferredoxin within the reaction centre []. PsaD forms a dimer in solution which is bound by PsaE however PsaD is monomeric in its native complexed PSI environment [].; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 2WSF_D 2O01_D 2WSC_D 2WSE_D 1JB0_D 3PCQ_D.
Probab=100.00 E-value=4.1e-94 Score=585.54 Aligned_cols=137 Identities=72% Similarity=1.140 Sum_probs=116.8
Q ss_pred cCCCCCCCcccccCccccccccccceeEEEEecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccccceee-e
Q 047658 72 QLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKI-K 150 (229)
Q Consensus 72 ~l~~~tp~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI-~ 150 (229)
+||+++|+|+||||||||||+||+||||||||+|+|||||||||||||+||+|+|||||||||||||||+|||+|||| |
T Consensus 2 tL~~~~p~P~FgGSTGGlL~~Ae~EEkYaITWts~keqvFEmPTGGAA~M~~G~NLlylARKEQclALgtQLrtkfKI~d 81 (139)
T PF02531_consen 2 TLNGKTPSPIFGGSTGGLLRSAETEEKYAITWTSPKEQVFEMPTGGAAIMREGENLLYLARKEQCLALGTQLRTKFKIED 81 (139)
T ss_dssp --SSB--SSB---BTTSC-TCCCCT-EEEEEEEESSSEEEETTTTCEEEE-SCCEEEEESSCCCCCCCCCCTCCSCTS--
T ss_pred ccCCCCCCCcccccchhhhhccccceeEEEEecCCcceeEeccCchhHhhhcCchhhhhHHHHHHHHHHHHHhhheeecc
Confidence 699999999999999999999999999999999999999999999999999999999999999999999999999999 8
Q ss_pred eeeeeecCCCceEeeccCCCCCCcccCCCccccCcccccCCCCCCCceeeeccchhhh
Q 047658 151 YQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNYRSIGKNVSPIEHKTELKKFHK 208 (229)
Q Consensus 151 ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFsgk~t~d 208 (229)
|||||||||||+|||||||||||||||+||+.||+++|+||+||||++||||||++||
T Consensus 82 ykIYRifp~Ge~~~lHPkDGVfpEKvN~GR~~vg~~~r~IG~NpnP~~~KFsgk~t~d 139 (139)
T PF02531_consen 82 YKIYRIFPNGEVQYLHPKDGVFPEKVNEGREGVGKVDRSIGKNPNPATVKFSGKATYD 139 (139)
T ss_dssp EEEEEE-TT--CEECCTTTSSSSSS-STT-S--SECSS-CCCTTSHHHCTTSTTSTT-
T ss_pred ceEEEEcCCCceEEeccCCCCCccccCCchhhcCCCCccccCCCCccccccCCCCCCC
Confidence 9999999999999999999999999999999999999999999999999999999998
No 4
>PF10787 YfmQ: Uncharacterised protein from bacillus cereus group; InterPro: IPR019723 This entry represents proteins conserved in the Bacillus cereus group. Several members are called YfmQ but the function is not known.
Probab=67.64 E-value=2.9 Score=35.85 Aligned_cols=25 Identities=32% Similarity=0.614 Sum_probs=20.3
Q ss_pred eeeecCCCceEeeccCCCCCCcccC
Q 047658 153 FYRVFPNGEVQYLHPKDGVYPEKVN 177 (229)
Q Consensus 153 iYRifP~Gevq~LHPkDGVfPEKVN 177 (229)
=|-++|++|-.||||++|.-|=-.+
T Consensus 74 kyY~~P~~e~~~l~pe~~gtPlvI~ 98 (149)
T PF10787_consen 74 KYYIPPGNEERYLHPENSGTPLVID 98 (149)
T ss_pred hhccCCCCcccccCcccCCCCEEEE
Confidence 3668899999999999998775443
No 5
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=49.77 E-value=11 Score=27.02 Aligned_cols=41 Identities=29% Similarity=0.455 Sum_probs=32.5
Q ss_pred hhhhhHHHhhhccccceeeeeeeeeecCCCceEeeccC-CCCCC
Q 047658 131 ARKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPK-DGVYP 173 (229)
Q Consensus 131 ARKEQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPk-DGVfP 173 (229)
...++|..+..+||. +|++. -..|-+.=|+-|+.|. +|-||
T Consensus 4 ~~~~~a~~~~~~LR~-~Kv~~-~~~vP~~lEI~~VP~~~~g~yP 45 (58)
T PF06883_consen 4 VSPEEAEQIADQLRY-LKVEG-EHGVPPTLEIGYVPPSKGGQYP 45 (58)
T ss_pred ecHHHHHHHHHHHHH-HHHcC-CCCCCCceEEEEEECCCCCCCC
Confidence 346899999999995 78865 5678899999999665 57777
No 6
>cd04700 DR1025_like DR1025 from Deinococcus radiodurans, a member of the Nudix hydrolase superfamily, show nucleoside triphosphatase and dinucleoside polyphosphate pyrophosphatase activities. Like other enzymes belonging to this superfamily, it requires a divalent cation, in this case Mg2+, for its activity. It also contains a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. In general, substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is us
Probab=45.30 E-value=1.1e+02 Score=23.51 Aligned_cols=70 Identities=21% Similarity=0.396 Sum_probs=48.5
Q ss_pred cCCCCCCCcccccCccccccccccceeEEEEecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccc
Q 047658 72 QLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLR 144 (229)
Q Consensus 72 ~l~~~tp~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLr 144 (229)
+.|-..--|+|.-+.|.++-..+-+=-.+-.+..++...+++|.|+ +..|+++..-|+.|=--..|-...
T Consensus 2 ~~~~~~~~~~~~~av~~vv~~~~~~vLL~~r~~~~~~~~w~lPgG~---ve~gEt~~~aa~REl~EEtGl~~~ 71 (142)
T cd04700 2 QYDERHHVEVEARAAGAVILNERNDVLLVQEKGGPKKGLWHIPSGA---VEDGEFPQDAAVREACEETGLRVR 71 (142)
T ss_pred CcccccCcceeeeeEEEEEEeCCCcEEEEEEcCCCCCCeEECCcee---cCCCCCHHHHHHHHHHHhhCceee
Confidence 3455566788999999988654432122223555677889999554 468999999999987777776554
No 7
>PF03608 EII-GUT: PTS system enzyme II sorbitol-specific factor; InterPro: IPR004699 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The Gut family consists only of glucitol-specific transporters, but these occur both in Gram-negative and Gram-positive bacteria. Escherichia coli consists of IIA protein, a IIC protein and a IIBC protein. This family is specific for the IIC component.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane
Probab=38.15 E-value=8.7 Score=33.46 Aligned_cols=42 Identities=33% Similarity=0.664 Sum_probs=31.9
Q ss_pred hhHHHhhhccccceeeeeeeeeecCCCceEeeccCCCCCCcccCCCccc
Q 047658 134 EQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQG 182 (229)
Q Consensus 134 EQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~ 182 (229)
.-|+.+|.-|-.|+|=.|. +--+++.||-.|+||- +|+|--.
T Consensus 79 PM~~t~GrFlpEkyKPayy------daa~~~~Hp~~GlFPH-~NpgELF 120 (168)
T PF03608_consen 79 PMAYTFGRFLPEKYKPAYY------DAAVSFCHPMTGLFPH-INPGELF 120 (168)
T ss_pred ccHHHHhccCccccCccHH------HHHHHhcCCccCCCCC-CChhHHH
Confidence 4588899999988886532 3346799999999995 7888643
No 8
>PF14061 Mtf2_C: Polycomb-like MTF2 factor 2
Probab=33.76 E-value=43 Score=24.41 Aligned_cols=21 Identities=48% Similarity=0.860 Sum_probs=16.6
Q ss_pred eeee--eecCCCceEeeccCCCC
Q 047658 151 YQFY--RVFPNGEVQYLHPKDGV 171 (229)
Q Consensus 151 ykiY--RifP~Gevq~LHPkDGV 171 (229)
|+|- ||-|+|.+|||-.-+|.
T Consensus 26 ~~VlArRV~~dG~vQYLvEWeg~ 48 (50)
T PF14061_consen 26 YRVLARRVTPDGKVQYLVEWEGA 48 (50)
T ss_pred eEEEEEEEcCCCcEEEEEEecCc
Confidence 5554 99999999999776664
No 9
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=33.62 E-value=31 Score=25.16 Aligned_cols=32 Identities=28% Similarity=0.612 Sum_probs=21.8
Q ss_pred hHHHhhhccccceeeeeeeeeecCCCceEeecc
Q 047658 135 QCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHP 167 (229)
Q Consensus 135 QClALgtqLrtkfKI~ykiYRifP~Gevq~LHP 167 (229)
-|+.|-..|....+++|.||-+ |+|..--..|
T Consensus 21 yciDll~~la~~l~F~y~i~~~-~Dg~yG~~~~ 52 (65)
T PF10613_consen 21 YCIDLLEELAEELNFTYEIYLV-PDGKYGSKNP 52 (65)
T ss_dssp HHHHHHHHHHHHHT-EEEEEE--TTS--EEBET
T ss_pred EHHHHHHHHHHHcCCeEEEEEC-CCCCCcCcCC
Confidence 5899999998888889999977 7665544444
No 10
>COG5489 Uncharacterized conserved protein [Function unknown]
Probab=31.91 E-value=38 Score=27.87 Aligned_cols=36 Identities=28% Similarity=0.584 Sum_probs=25.4
Q ss_pred CCCcCCCCCCCcccccCccccccccccceeEEEEecCCcce
Q 047658 69 TPPQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQ 109 (229)
Q Consensus 69 ~pp~l~~~tp~P~FgGSTGGlLr~A~~EEkYaITWtS~keQ 109 (229)
+.--=||+-..|+++ +|.+.++ ++.|++-|+-|+-+
T Consensus 71 svkLddP~f~~~i~A----~L~~~e~-~~~~~liW~rp~~~ 106 (107)
T COG5489 71 SVKLDDPSFGAPIYA----NLFPAEG-EGTYALIWNRPKRD 106 (107)
T ss_pred EEEecCCcCCCeeEe----eeeecCC-CCcEEEEecCCCCC
Confidence 333345666667764 5666666 99999999999865
No 11
>COG4697 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.74 E-value=36 Score=32.30 Aligned_cols=50 Identities=26% Similarity=0.321 Sum_probs=33.2
Q ss_pred eeeecCCCceE---------eeccCCCCCCcccCCCccccCcccccCCCCCCCceeeeccchhhh
Q 047658 153 FYRVFPNGEVQ---------YLHPKDGVYPEKVNPGRQGVGVNYRSIGKNVSPIEHKTELKKFHK 208 (229)
Q Consensus 153 iYRifP~Gevq---------~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFsgk~t~d 208 (229)
.||++|+|||. .+-+.||||.-|+.-|- -|.|-.||.|----|+.+++|-
T Consensus 127 ~dr~~p~geV~lyNpysd~lllir~DG~~~~~rr~gG------ir~lss~P~~kg~~i~d~a~Fg 185 (319)
T COG4697 127 VDRLYPFGEVRLYNPYSDRLLLIREDGFRAQKRRIGG------IRILSSNPAEKGRDISDKATFG 185 (319)
T ss_pred ccccCCCceEEeeCCccccceeccccCchhhcceecc------eeeeccCCCcccceeeeeeeee
Confidence 47889999996 24478999988775331 2455566666555566666553
No 12
>TIGR00821 EII-GUT PTS system, glucitol/sorbitol-specific, IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Gut family consists only of glucitol-specific transporters, but these occur both in Gram-negative and Gram-positive bacteria.E. coli consists of IIA protein, a IIC protein and a IIBC protein. This family is specific for the IIC component.
Probab=29.88 E-value=11 Score=33.28 Aligned_cols=42 Identities=33% Similarity=0.550 Sum_probs=32.2
Q ss_pred hhHHHhhhccccceeeeeeeeeecCCCceEeeccCCCCCCcccCCCccc
Q 047658 134 EQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQG 182 (229)
Q Consensus 134 EQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~ 182 (229)
.-|+.+|.-|..|+|=.|. +--+++.||-.|+||- +|+|--.
T Consensus 82 PMa~s~GrFlpEkyKPsyy------~aa~~~~H~~~glFPH-iNpgELF 123 (181)
T TIGR00821 82 PMTLSLGKFLPEKYKPSYY------AAASYSCHSMNGLFPH-INPGELF 123 (181)
T ss_pred chHHHHhhcChhhcCccHH------HHHHHhhCcccccCCC-CChhHHH
Confidence 4588899889888886542 3356789999999995 7888654
No 13
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=28.00 E-value=85 Score=22.59 Aligned_cols=44 Identities=23% Similarity=0.403 Sum_probs=27.7
Q ss_pred Hhhhccccceee--e-e-eeeeecCCCceEeeccCCCCCCcccCCCcc
Q 047658 138 ALGTRLRSKYKI--K-Y-QFYRVFPNGEVQYLHPKDGVYPEKVNPGRQ 181 (229)
Q Consensus 138 ALgtqLrtkfKI--~-y-kiYRifP~Gevq~LHPkDGVfPEKVN~GR~ 181 (229)
+.|.+++=.++. + | .|+-+-++|++..|.|.+.---..|++|+.
T Consensus 4 ~~Ge~v~~~~~~~~~~Yl~l~~~~~~G~v~~L~Pn~~~~~~~v~ag~~ 51 (83)
T PF14326_consen 4 RVGERVRFRVTSNRDGYLYLFYIDADGKVTLLFPNRYQPDNFVKAGQT 51 (83)
T ss_pred cCCCEEEEEEEeCCCeEEEEEEECCCCCEEEEecCccccCceEcCCce
Confidence 456666644444 2 2 355677999999998876544455555554
No 14
>PF10189 DUF2356: Conserved protein (DUF2356); InterPro: IPR019333 The Integrator complex is involved in small nuclear RNA (snRNA) U1 and U2 transcription, and in their 3'-box-dependent processing. This complex associates with the C-terminal domain of RNA polymerase II largest subunit and is recruited to the U1 and U2 snRNAs genes []. This entry represents subunit 3 of this complex. The function of this subunit is unknown.
Probab=27.03 E-value=35 Score=30.76 Aligned_cols=27 Identities=26% Similarity=0.499 Sum_probs=23.2
Q ss_pred eeeeccchhhhhhhhHHHH------------HHHhhhhc
Q 047658 198 EHKTELKKFHKRWLHMEHL------------IKSLCSVF 224 (229)
Q Consensus 198 ~vKFsgk~t~d~~~~~~~~------------~~~~~~~~ 224 (229)
+|||.+++.|.+|+...|| |..+|.++
T Consensus 51 ~Vk~G~~kryq~WF~~kyL~~pesesL~~DlIRfIc~~~ 89 (230)
T PF10189_consen 51 NVKFGNQKRYQDWFAKKYLSTPESESLRPDLIRFICCVY 89 (230)
T ss_pred hcCCCchhHHHHHHHHHhcCCCCcchHHHHHHHHHHHhc
Confidence 6899999999999998875 77788776
No 15
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=22.59 E-value=84 Score=27.65 Aligned_cols=58 Identities=22% Similarity=0.427 Sum_probs=36.7
Q ss_pred ccCccccccccccceeEEEEecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccccceeeeeeeeeecCCCc
Q 047658 83 GGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKIKYQFYRVFPNGE 161 (229)
Q Consensus 83 gGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI~ykiYRifP~Ge 161 (229)
||.+.||+|..|.+-.=+..+..+ +|+-+ -=+.|+.+..++=.++.|.|.+.+. |.|+
T Consensus 149 g~~~~GL~R~reF~~~e~~~f~~~-e~~~~-------------------~~~~~l~~~~~i~~~lgl~~~~~~~-~~~d 206 (297)
T cd00770 149 GRDTRGLFRVHQFEKVEQFVFTKP-EESWE-------------------ELEELISNAEEILQELGLPYRVVNI-CTGD 206 (297)
T ss_pred CCCCCCceEEEeeeeeeEEEEECc-hHHHH-------------------HHHHHHHHHHHHHHHcCCcEEEEEc-cCcc
Confidence 578999999998765544444444 33221 1245666666655667888877765 4554
No 16
>cd04662 Nudix_Hydrolase_5 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=22.47 E-value=2.1e+02 Score=23.07 Aligned_cols=39 Identities=21% Similarity=0.383 Sum_probs=31.2
Q ss_pred ecCCcceeeeccCCcchhcccCcchhhhhhhhhHHHhhhccc
Q 047658 103 WESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLR 144 (229)
Q Consensus 103 WtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLr 144 (229)
|.++....+++|-|.. ..|++...-|+.|=+-.+|-...
T Consensus 27 ~~~~~~~~W~lPgG~i---e~~E~~~~aA~REl~EEtGl~~~ 65 (126)
T cd04662 27 WANKDLGAWSIPKGEY---TEGEDPLLAAKREFSEETGFCVD 65 (126)
T ss_pred ccCCCCCEEECCcccC---CCCcCHHHHHHHHHHHHhCCcce
Confidence 5567778899994443 57999999999999999987655
No 17
>cd05810 CBM20_alpha_MTH Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from its non-reducing end. Most alpha-MTHs have, in addition to the C-terminal CBM20 domain, an N-terminal glycosyl hydrolase family 13 catalytic domain. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognitio
Probab=22.34 E-value=1e+02 Score=23.05 Aligned_cols=30 Identities=13% Similarity=0.149 Sum_probs=25.0
Q ss_pred cccceeEEE----------EecCCcceeeeccCCcchhcc
Q 047658 93 AQVEEFYVI----------TWESPKEQIFEMPTGGAAIMR 122 (229)
Q Consensus 93 A~~EEkYaI----------TWtS~keQvFEmPTGGAAiM~ 122 (229)
..+|=||++ .|++.....+..|.+||-.|-
T Consensus 56 ~~veyKyv~~~~~~~~~~v~WE~g~Nr~~~~p~~~~~~~~ 95 (97)
T cd05810 56 TNVEWKCLKRNETNPTAGVQWQGGGNNQLTTGNSTASTSG 95 (97)
T ss_pred CeEEEEEEEEcCCCCcceEEEeeCCCEEEeCCCCCceecc
Confidence 458888855 799999999999999987773
No 18
>KOG2455 consensus Delta-1-pyrroline-5-carboxylate dehydrogenase [Amino acid transport and metabolism]
Probab=21.61 E-value=24 Score=35.45 Aligned_cols=22 Identities=36% Similarity=0.960 Sum_probs=19.7
Q ss_pred eeeeeeec-----CCCceEeeccCCCCC
Q 047658 150 KYQFYRVF-----PNGEVQYLHPKDGVY 172 (229)
Q Consensus 150 ~ykiYRif-----P~Gevq~LHPkDGVf 172 (229)
+|-||||| |.|-++|+ |.||+.
T Consensus 239 sYii~~il~EAGlP~GvinFv-Pad~~~ 265 (561)
T KOG2455|consen 239 SYIIYRILREAGLPPGVINFV-PADGPL 265 (561)
T ss_pred HHHHHHHHHHcCCCccceeec-cCCCCe
Confidence 58899998 99999999 999974
No 19
>PRK13744 conjugal transfer protein TrbG; Provisional
Probab=20.56 E-value=1.5e+02 Score=23.22 Aligned_cols=40 Identities=30% Similarity=0.628 Sum_probs=32.5
Q ss_pred CCCCCCCcCCCCCCCcccccCccccccccccceeEEEEecCCcceeeeccC
Q 047658 65 PVGFTPPQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPT 115 (229)
Q Consensus 65 p~~f~pp~l~~~tp~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPT 115 (229)
..|.+||.-..+.|-|--||- .--+..+.|.+..|||-|.
T Consensus 20 esgitpplcevsapepdaggk-----------rivayvykssrstvfenpd 59 (83)
T PRK13744 20 ESGITPPLCEVSAPEPDAGGK-----------RIVAYVYKSSRSTVFENPD 59 (83)
T ss_pred ecCCCCccccccCCCCCCCCc-----------EEEEEEeecccceeccCCC
Confidence 458899999999999988873 3456678899999999874
No 20
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=20.44 E-value=96 Score=24.58 Aligned_cols=34 Identities=35% Similarity=0.562 Sum_probs=25.5
Q ss_pred Hhhhccccceee-----eeeeeeecCCCceEeeccCCCCCC
Q 047658 138 ALGTRLRSKYKI-----KYQFYRVFPNGEVQYLHPKDGVYP 173 (229)
Q Consensus 138 ALgtqLrtkfKI-----~ykiYRifP~Gevq~LHPkDGVfP 173 (229)
..-.+|-.|||| +|-+|-+..+||.+.| +|-=+|
T Consensus 27 eVI~~LL~KFkv~~~p~~FALy~vh~~Ge~rkL--~d~E~P 65 (87)
T cd01784 27 QVLKLLLNKFKIENSAEEFALYIVHTSGEKRKL--KATDYP 65 (87)
T ss_pred HHHHHHHHhccccCCHHHeEEEEEeeCCCEEEC--CCcCCC
Confidence 344567779998 2999999999998888 444445
No 21
>PLN02798 nitrilase
Probab=20.00 E-value=91 Score=26.46 Aligned_cols=28 Identities=18% Similarity=0.151 Sum_probs=21.1
Q ss_pred eeeecCCCceEeeccCCCCCCcccCCCc
Q 047658 153 FYRVFPNGEVQYLHPKDGVYPEKVNPGR 180 (229)
Q Consensus 153 iYRifP~Gevq~LHPkDGVfPEKVN~GR 180 (229)
.+-|-|+|++...|.|...|++++..|+
T Consensus 107 ~~vi~~~G~i~~~y~K~~L~~~~~p~~~ 134 (286)
T PLN02798 107 HVLIDDSGEIRSSYRKIHLFDVDVPGGP 134 (286)
T ss_pred EEEECCCCCEEEEEEEEEeccccCCCCC
Confidence 3455699999999999988887665443
Done!