Query 028581
Match_columns 207
No_of_seqs 89 out of 91
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 13:45:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028581.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028581hhsearch_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 5E-101 1E-105 644.5 11.2 185 22-207 12-196 (196)
2 CHL00145 psaD photosystem I su 100.0 9.5E-96 2E-100 588.9 10.0 138 69-206 1-139 (139)
3 PF02531 PsaD: PsaD; InterPro 100.0 3.4E-95 7E-100 585.7 5.1 137 70-206 2-139 (139)
4 PF10787 YfmQ: Uncharacterised 69.2 2.5 5.5E-05 35.7 1.3 25 151-175 74-98 (149)
5 PF06883 RNA_pol_Rpa2_4: RNA p 53.8 9.1 0.0002 27.2 1.7 41 129-171 4-45 (58)
6 cd04700 DR1025_like DR1025 fro 43.8 90 0.0019 23.6 5.8 70 70-142 2-71 (142)
7 PF03608 EII-GUT: PTS system e 43.5 6.3 0.00014 33.9 -0.6 41 132-179 79-119 (168)
8 TIGR00821 EII-GUT PTS system, 39.1 7.3 0.00016 33.9 -0.8 42 132-180 82-123 (181)
9 PF10613 Lig_chan-Glu_bd: Liga 39.1 24 0.00051 25.5 1.9 32 133-165 21-52 (65)
10 PF14061 Mtf2_C: Polycomb-like 36.8 37 0.0008 24.4 2.5 21 149-169 26-48 (50)
11 COG5489 Uncharacterized conser 34.4 33 0.00071 27.9 2.2 33 70-107 74-106 (107)
12 COG4697 Uncharacterized protei 32.1 37 0.00081 31.8 2.5 49 151-205 127-184 (319)
13 PF14326 DUF4384: Domain of un 29.8 77 0.0017 22.5 3.3 44 136-179 4-51 (83)
14 cd00770 SerRS_core Seryl-tRNA 25.7 71 0.0015 27.8 3.0 58 81-159 149-206 (297)
15 cd05810 CBM20_alpha_MTH Glucan 25.6 94 0.002 22.9 3.2 30 91-120 56-95 (97)
16 cd01784 rasfadin_RA Ubiquitin- 23.6 79 0.0017 24.7 2.6 36 134-171 25-65 (87)
17 PLN02798 nitrilase 23.1 72 0.0016 26.7 2.5 28 151-178 107-134 (286)
18 KOG2455 Delta-1-pyrroline-5-ca 21.8 23 0.00049 35.2 -0.9 22 148-170 239-265 (561)
19 cd01782 AF6_RA_repeat1 Ubiquit 21.1 84 0.0018 25.7 2.4 32 134-165 48-87 (112)
20 cd04662 Nudix_Hydrolase_5 Memb 20.7 1.9E+02 0.004 23.1 4.2 39 101-142 27-65 (126)
21 PLN03132 NADH dehydrogenase (u 20.3 16 0.00036 35.0 -2.1 50 79-129 316-365 (461)
No 1
>PLN00041 photosystem I reaction center subunit II; Provisional
Probab=100.00 E-value=5e-101 Score=644.47 Aligned_cols=185 Identities=80% Similarity=1.261 Sum_probs=162.3
Q ss_pred cccccccCccccccCCCCCCCccchhhhhhcCCCCCCCccCCCcCCCCCCCCCCCCCccccCccccccccccceeEEEEe
Q 028581 22 SSAPWKQSSSFSVRPLKHNAPRTNTIKAMAEGKTETPTKEAPVGFTPPELDPNTPSPIFGGSTGGLLRKAQVEEFYVITW 101 (207)
Q Consensus 22 ~~~~w~~ss~~s~~~~~~~~~~~~~~~a~~~~~~~~~~~~ap~~f~p~~l~~~~p~P~FgGSTGGlLr~A~~EEkYaITW 101 (207)
...+|++++..+...........+..++.++ +++++++++|++|+||+||+++|+|+||||||||||+||+||||+|||
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~t~~~~~l~~~~P~FgGSTGGlL~~Ae~EEkYaITW 90 (196)
T PLN00041 12 KLVPWASFLSKSTSKAPASLSATRAVRAAAA-AEEAAAKEAPVGFTPPTLNPNTPSPIFGGSTGGLLRKAQVEEFYVITW 90 (196)
T ss_pred eeeeeccccccccccccccccchhHHHHHhh-hcccccccCCCCcCCcccCCCCCCCcccccchhhhhhhhhhhheEEEe
Confidence 4578987633333222222222233333322 223467889999999999999999999999999999999999999999
Q ss_pred cCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccccceeeeeEeeeecCCCceEeeccCCCCCCcccCCCcccc
Q 028581 102 ESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGREGV 181 (207)
Q Consensus 102 tS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~v 181 (207)
+|+|||||||||||||+||+|+|||||||||||||||+|||+||||||||||||||||+|||||||||||||||+||++|
T Consensus 91 tS~keQvFEmPTGGAAiM~~G~NLlylARKEQCLALgtQLrtkfKIdykiYRifP~Ge~q~LHPkDGVfPEKvN~GR~~v 170 (196)
T PLN00041 91 ESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLALGTRLRSKYKITYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRVGV 170 (196)
T ss_pred cCChhheeecCCchhhhhhcCchHHHHHHHHHHHHHHHHHhhhcccceeEEEEcCCCceEEecCCCCCCccccCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccCCCCCCcceEEecccccccC
Q 028581 182 GQNYRSIGKNVSPIEVKFTGKQVYDL 207 (207)
Q Consensus 182 g~~~r~IGkN~nP~~vKFtgk~tyd~ 207 (207)
|+|+|+||+|+||++||||||++||+
T Consensus 171 g~~~r~IG~N~nP~~vKFsgk~~yd~ 196 (196)
T PLN00041 171 GQNMRSIGKNVNPIEVKFTGKQAYDL 196 (196)
T ss_pred CCCCccccCCCCcceEEecCCccCCC
Confidence 99999999999999999999999995
No 2
>CHL00145 psaD photosystem I subunit II; Validated
Probab=100.00 E-value=9.5e-96 Score=588.90 Aligned_cols=138 Identities=74% Similarity=1.196 Sum_probs=136.3
Q ss_pred CCCCCCCCCCccccCccccccccccceeEEEEecCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccccceee-
Q 028581 69 PELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLRSKYKI- 147 (207)
Q Consensus 69 ~~l~~~~p~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI- 147 (207)
+++++++++|+||||||||||+||+||||||||+|++||||||||||||+||+|+|||||||||||||||+|||+||||
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 eeEeeeecCCCceEeeccCCCCCCcccCCCccccCCccccCCCCCCcceEEeccccccc
Q 028581 148 KYQFYRVFPNGEVQYLHPKDGVYPEKVNPGREGVGQNYRSIGKNVSPIEVKFTGKQVYD 206 (207)
Q Consensus 148 ~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFtgk~tyd 206 (207)
||||||||||||+|||||||||||||||+||+.||+++|+||+||||++||||||++||
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 89999999999999999999999999999999999999999999999999999999998
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=3.4e-95 Score=585.68 Aligned_cols=137 Identities=77% Similarity=1.262 Sum_probs=116.8
Q ss_pred CCCCCCCCCccccCccccccccccceeEEEEecCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccccceee-e
Q 028581 70 ELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLRSKYKI-K 148 (207)
Q Consensus 70 ~l~~~~p~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI-~ 148 (207)
+||+++|+|+||||||||||+||+||||||||+|+|||||||||||||+||+|+|||||||||||||||+|||+|||| |
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 eEeeeecCCCceEeeccCCCCCCcccCCCccccCCccccCCCCCCcceEEeccccccc
Q 028581 149 YQFYRVFPNGEVQYLHPKDGVYPEKVNPGREGVGQNYRSIGKNVSPIEVKFTGKQVYD 206 (207)
Q Consensus 149 ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFtgk~tyd 206 (207)
|||||||||||+|||||||||||||||+||+.||+++|+||+|+||++||||||++||
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=69.20 E-value=2.5 Score=35.73 Aligned_cols=25 Identities=32% Similarity=0.614 Sum_probs=20.6
Q ss_pred eeeecCCCceEeeccCCCCCCcccC
Q 028581 151 FYRVFPNGEVQYLHPKDGVYPEKVN 175 (207)
Q Consensus 151 iYRifP~Gevq~LHPkDGVfPEKVN 175 (207)
=|-++|++|-.||||++|.-|=-.+
T Consensus 74 kyY~~P~~e~~~l~pe~~gtPlvI~ 98 (149)
T PF10787_consen 74 KYYIPPGNEERYLHPENSGTPLVID 98 (149)
T ss_pred hhccCCCCcccccCcccCCCCEEEE
Confidence 3668899999999999998885443
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=53.84 E-value=9.1 Score=27.16 Aligned_cols=41 Identities=29% Similarity=0.455 Sum_probs=32.6
Q ss_pred hhhhhHHHHhhccccceeeeeEeeeecCCCceEeeccC-CCCCC
Q 028581 129 ARKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPK-DGVYP 171 (207)
Q Consensus 129 ARKEQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPk-DGVfP 171 (207)
...++|..+..+||. +|++. -..|-+.=|+-|+.|. +|-||
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=43.84 E-value=90 Score=23.64 Aligned_cols=70 Identities=20% Similarity=0.399 Sum_probs=48.3
Q ss_pred CCCCCCCCCccccCccccccccccceeEEEEecCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccc
Q 028581 70 ELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLR 142 (207)
Q Consensus 70 ~l~~~~p~P~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLr 142 (207)
+.|-..--|+|.-+.|.++-..+-+=-.+-.+..++...+++|.|+ +..|++++.-|+.|=--..|-...
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 3455566788999999988654432122223555677889999543 568999999999887777776554
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=43.53 E-value=6.3 Score=33.91 Aligned_cols=41 Identities=34% Similarity=0.713 Sum_probs=31.5
Q ss_pred hhHHHHhhccccceeeeeEeeeecCCCceEeeccCCCCCCcccCCCcc
Q 028581 132 EQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRE 179 (207)
Q Consensus 132 EQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~ 179 (207)
.-|+.+|.-|-.|+|=.|. +--+++.||-.|+||- +|+|--
T Consensus 79 PM~~t~GrFlpEkyKPayy------daa~~~~Hp~~GlFPH-~NpgEL 119 (168)
T PF03608_consen 79 PMAYTFGRFLPEKYKPAYY------DAAVSFCHPMTGLFPH-INPGEL 119 (168)
T ss_pred ccHHHHhccCccccCccHH------HHHHHhcCCccCCCCC-CChhHH
Confidence 3588899999988886542 3346799999999995 788754
No 8
>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=39.10 E-value=7.3 Score=33.90 Aligned_cols=42 Identities=33% Similarity=0.540 Sum_probs=32.1
Q ss_pred hhHHHHhhccccceeeeeEeeeecCCCceEeeccCCCCCCcccCCCccc
Q 028581 132 EQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGREG 180 (207)
Q Consensus 132 EQClALgtqLrtkfKI~ykiYRifP~Gevq~LHPkDGVfPEKVN~GR~~ 180 (207)
.=|+.+|.-|..|+|=.|. +--+++.||-.|+||- +|+|--.
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 4588899999888886542 3356789999999995 7888643
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=39.06 E-value=24 Score=25.47 Aligned_cols=32 Identities=28% Similarity=0.612 Sum_probs=22.0
Q ss_pred hHHHHhhccccceeeeeEeeeecCCCceEeecc
Q 028581 133 QCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHP 165 (207)
Q Consensus 133 QClALgtqLrtkfKI~ykiYRifP~Gevq~LHP 165 (207)
-|+.|...|..+.+++|.||-+ |+|..--..|
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
>PF14061 Mtf2_C: Polycomb-like MTF2 factor 2
Probab=36.84 E-value=37 Score=24.41 Aligned_cols=21 Identities=48% Similarity=0.860 Sum_probs=16.7
Q ss_pred eEee--eecCCCceEeeccCCCC
Q 028581 149 YQFY--RVFPNGEVQYLHPKDGV 169 (207)
Q Consensus 149 ykiY--RifP~Gevq~LHPkDGV 169 (207)
|+|- ||-|+|.+|||-.-+|.
T Consensus 26 ~~VlArRV~~dG~vQYLvEWeg~ 48 (50)
T PF14061_consen 26 YRVLARRVTPDGKVQYLVEWEGA 48 (50)
T ss_pred eEEEEEEEcCCCcEEEEEEecCc
Confidence 5554 99999999999776664
No 11
>COG5489 Uncharacterized conserved protein [Function unknown]
Probab=34.38 E-value=33 Score=27.86 Aligned_cols=33 Identities=30% Similarity=0.634 Sum_probs=24.1
Q ss_pred CCCCCCCCCccccCccccccccccceeEEEEecCCcce
Q 028581 70 ELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQ 107 (207)
Q Consensus 70 ~l~~~~p~P~FgGSTGGlLr~A~~EEkYaITWtS~keQ 107 (207)
-=||+-..|+++ +|.+.++ ++.|++-|+-|+-+
T Consensus 74 LddP~f~~~i~A----~L~~~e~-~~~~~liW~rp~~~ 106 (107)
T COG5489 74 LDDPSFGAPIYA----NLFPAEG-EGTYALIWNRPKRD 106 (107)
T ss_pred ecCCcCCCeeEe----eeeecCC-CCcEEEEecCCCCC
Confidence 335666667764 5666666 99999999999865
No 12
>COG4697 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.05 E-value=37 Score=31.81 Aligned_cols=49 Identities=27% Similarity=0.417 Sum_probs=31.9
Q ss_pred eeeecCCCceE---------eeccCCCCCCcccCCCccccCCccccCCCCCCcceEEecccccc
Q 028581 151 FYRVFPNGEVQ---------YLHPKDGVYPEKVNPGREGVGQNYRSIGKNVSPIEVKFTGKQVY 205 (207)
Q Consensus 151 iYRifP~Gevq---------~LHPkDGVfPEKVN~GR~~vg~~~r~IGkN~nP~~vKFtgk~ty 205 (207)
.||++|+|||. .|-+.||||.-|+.-|- -|.|-.||.|----|+.+++|
T Consensus 127 ~dr~~p~geV~lyNpysd~lllir~DG~~~~~rr~gG------ir~lss~P~~kg~~i~d~a~F 184 (319)
T COG4697 127 VDRLYPFGEVRLYNPYSDRLLLIREDGFRAQKRRIGG------IRILSSNPAEKGRDISDKATF 184 (319)
T ss_pred ccccCCCceEEeeCCccccceeccccCchhhcceecc------eeeeccCCCcccceeeeeeee
Confidence 47889999996 34478999988776331 245556666655555555554
No 13
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=29.81 E-value=77 Score=22.53 Aligned_cols=44 Identities=23% Similarity=0.403 Sum_probs=27.4
Q ss_pred HHhhccccceee--e-e-EeeeecCCCceEeeccCCCCCCcccCCCcc
Q 028581 136 ALGTRLRSKYKI--K-Y-QFYRVFPNGEVQYLHPKDGVYPEKVNPGRE 179 (207)
Q Consensus 136 ALgtqLrtkfKI--~-y-kiYRifP~Gevq~LHPkDGVfPEKVN~GR~ 179 (207)
+.|.+++=.++. + | .|+-+-++|++..|.|-+.---..|++|+.
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 346666644444 2 2 355667999999998876544445555554
No 14
>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=25.68 E-value=71 Score=27.78 Aligned_cols=58 Identities=22% Similarity=0.427 Sum_probs=37.1
Q ss_pred ccCccccccccccceeEEEEecCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccccceeeeeEeeeecCCCc
Q 028581 81 GGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLRSKYKIKYQFYRVFPNGE 159 (207)
Q Consensus 81 gGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLrtkfKI~ykiYRifP~Ge 159 (207)
|+.+.||+|..|.+-.=...+..+ +|+-+ -=+.|+.+..++=.++.|.|.+.+. +.|+
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 577999999998765544444444 33322 2256677777765668888877765 4554
No 15
>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=25.63 E-value=94 Score=22.92 Aligned_cols=30 Identities=13% Similarity=0.149 Sum_probs=24.9
Q ss_pred cccceeEEE----------EecCCcceeeeccCCceeecc
Q 028581 91 AQVEEFYVI----------TWESPKEQIFEMPTGGAAIMR 120 (207)
Q Consensus 91 A~~EEkYaI----------TWtS~keQvFEmPTGGAAiM~ 120 (207)
..+|=||++ .|++.....+..|.+||-.|-
T Consensus 56 ~~veyKyv~~~~~~~~~~v~WE~g~Nr~~~~p~~~~~~~~ 95 (97)
T cd05810 56 TNVEWKCLKRNETNPTAGVQWQGGGNNQLTTGNSTASTSG 95 (97)
T ss_pred CeEEEEEEEEcCCCCcceEEEeeCCCEEEeCCCCCceecc
Confidence 358888854 799999999999999987773
No 16
>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=23.56 E-value=79 Score=24.73 Aligned_cols=36 Identities=33% Similarity=0.505 Sum_probs=26.4
Q ss_pred HHHHhhccccceee-----eeEeeeecCCCceEeeccCCCCCC
Q 028581 134 CLALGTRLRSKYKI-----KYQFYRVFPNGEVQYLHPKDGVYP 171 (207)
Q Consensus 134 ClALgtqLrtkfKI-----~ykiYRifP~Gevq~LHPkDGVfP 171 (207)
+-..-.+|-.|||| +|-+|-+..+||.+.| +|-=+|
T Consensus 25 t~eVI~~LL~KFkv~~~p~~FALy~vh~~Ge~rkL--~d~E~P 65 (87)
T cd01784 25 TPQVLKLLLNKFKIENSAEEFALYIVHTSGEKRKL--KATDYP 65 (87)
T ss_pred HHHHHHHHHHhccccCCHHHeEEEEEeeCCCEEEC--CCcCCC
Confidence 33444567789998 2999999999998888 444444
No 17
>PLN02798 nitrilase
Probab=23.07 E-value=72 Score=26.72 Aligned_cols=28 Identities=18% Similarity=0.151 Sum_probs=21.5
Q ss_pred eeeecCCCceEeeccCCCCCCcccCCCc
Q 028581 151 FYRVFPNGEVQYLHPKDGVYPEKVNPGR 178 (207)
Q Consensus 151 iYRifP~Gevq~LHPkDGVfPEKVN~GR 178 (207)
.+-|-|+|++...|.|...|++++..++
T Consensus 107 ~~vi~~~G~i~~~y~K~~L~~~~~p~~~ 134 (286)
T PLN02798 107 HVLIDDSGEIRSSYRKIHLFDVDVPGGP 134 (286)
T ss_pred EEEECCCCCEEEEEEEEEeccccCCCCC
Confidence 3455699999999999998887665444
No 18
>KOG2455 consensus Delta-1-pyrroline-5-carboxylate dehydrogenase [Amino acid transport and metabolism]
Probab=21.78 E-value=23 Score=35.24 Aligned_cols=22 Identities=36% Similarity=0.960 Sum_probs=19.6
Q ss_pred eeEeeeec-----CCCceEeeccCCCCC
Q 028581 148 KYQFYRVF-----PNGEVQYLHPKDGVY 170 (207)
Q Consensus 148 ~ykiYRif-----P~Gevq~LHPkDGVf 170 (207)
+|-||||| |.|-++|+ |.||+.
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 999964
No 19
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=21.13 E-value=84 Score=25.69 Aligned_cols=32 Identities=28% Similarity=0.426 Sum_probs=24.3
Q ss_pred HHHHhhccccceee--------eeEeeeecCCCceEeecc
Q 028581 134 CLALGTRLRSKYKI--------KYQFYRVFPNGEVQYLHP 165 (207)
Q Consensus 134 ClALgtqLrtkfKI--------~ykiYRifP~Gevq~LHP 165 (207)
+-.+-.+|-.|||| +|-+|-|.++||.+.|-.
T Consensus 48 t~eVI~~LLeKFk~d~~~~s~p~FALYevh~nGe~RKL~d 87 (112)
T cd01782 48 TRDVIDTLSEKFRPDMRMLSNPTYSLYEVHENGEERRLLD 87 (112)
T ss_pred HHHHHHHHHHHhcccccccCCcceEEEEEecCCceEEcCC
Confidence 34455667789983 389999999999988833
No 20
>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=20.66 E-value=1.9e+02 Score=23.12 Aligned_cols=39 Identities=23% Similarity=0.400 Sum_probs=31.1
Q ss_pred ecCCcceeeeccCCceeecccCccceeehhhhhHHHHhhccc
Q 028581 101 WESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLR 142 (207)
Q Consensus 101 WtS~keQvFEmPTGGAAiM~~G~NLLylARKEQClALgtqLr 142 (207)
|.++....+++|-|.. ..|++...-|+.|=+-.+|-...
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 21
>PLN03132 NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional
Probab=20.30 E-value=16 Score=35.00 Aligned_cols=50 Identities=20% Similarity=0.316 Sum_probs=36.6
Q ss_pred ccccCccccccccccceeEEEEecCCcceeeeccCCceeecccCccceeeh
Q 028581 79 IFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLA 129 (207)
Q Consensus 79 ~FgGSTGGlLr~A~~EEkYaITWtS~keQvFEmPTGGAAiM~~G~NLLylA 129 (207)
+.||+.|++|..++++. -.++++|-++-=--|=+||.-+|.+..+++..+
T Consensus 316 i~GG~s~~~l~~~~~~~-~~ld~~~l~~~Gs~lGsGgviV~de~~~~v~~~ 365 (461)
T PLN03132 316 IPGGSSVPLLPKKICDD-VLMDFDALKAVQSGLGTAAVIVMDKSTDVVDAI 365 (461)
T ss_pred EECCCCcccccHHHhCC-CCCCHHHHHhcCCCcCcceEEEECCCCCHHHHH
Confidence 56999999999776632 445677766655678889999999986555443
Done!