Citrus Sinensis ID: 031202

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160----
Protein Sequence
MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSAK
Secondary Structure (PSIPRED)
cccccEEEEEEcccHHHHHHHHHHHHHHHccccEEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHHHHHHccccEEEEcccccccccccEEccHHHHHHccccccEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEcccHHHHHHHHHHHHHHHccccEEEEEEEccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHHHHHHccccEEEEEcccccHHHEEEEccccHHEEccccccEEEEEccccccc
Coil and Loop (DISEMBL)
mskartvgvgmdnspnsKAALRWAADNLIDSGDLIILihvqppnadhtrkqlfedtgsplvpleefreinfskqygltsnpevLDILDTLSRTKGAKVVAKVywgdprekLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSnhvvtnsscpvtvvkgnpvsak
Flexible Loop (DISEMBL)
mskartvgvgmdnspnSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFskqygltsnpeVLDILDTLSRTKGAKVVAkvywgdprEKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVsnhvvtnsscpvtvvkgnpvsak
Low Complexity Region (SEG)
MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSAK
Disordered region (IsUnstruct)
*******************ALRWAADNLIDSGDLIILIHVQPP********LFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV********
Disordered Region (DISOPRED)
*SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPV****G******
Disordered Region (DISEMBL)
***********DNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSAK
Disordered Region (DISPRO)
**KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSAK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	164	2.2.26 [Sep-21-2011]
Q8LGG8	175	Universal stress protein	no	no	0.835	0.782	0.326	5e-13
A0QZA1	294	Universal stress protein	yes	no	0.878	0.489	0.326	8e-09
Q57951	170	Universal stress protein	yes	no	0.463	0.447	0.355	7e-07
P42297	148	Universal stress protein	yes	no	0.597	0.662	0.330	9e-06
Q57997	162	Universal stress protein	no	no	0.384	0.388	0.412	1e-05
P74897	137	Universal stress protein	N/A	no	0.353	0.423	0.413	3e-05
P0A5F8	317	Universal stress protein	yes	no	0.884	0.457	0.26	9e-05
P0A5F7	317	Universal stress protein	yes	no	0.884	0.457	0.26	9e-05
O53472	294	Universal stress protein	yes	no	0.439	0.244	0.346	0.0002
P72817	157	Universal stress protein	N/A	no	0.792	0.828	0.277	0.0003

>sp|Q8LGG8|USPAL_ARATH Universal stress protein A-like protein OS=Arabidopsis thaliana GN=At3g01520 PE=1 SV=2

 Score = 73.6 bits (179), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 78/150 (52%), Gaps = 13/150 (8%)

Query: 14  SPNSKAALRWAADNLI--DSGDL-IILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREIN 70
           S + K A  W  + ++  ++ D  I+L+HVQ  + D      F+D  S     E+FR++ 
Sbjct: 24  SISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDG-----FDDVDSIYASPEDFRDMR 78

Query: 71  FS-KQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRG 129
            S K  GL     +L+         G    A +  GDP++ +C  V+ ++ D LVVGSRG
Sbjct: 79  QSNKAKGL----HLLEFFVNKCHEIGVGCEAWIKTGDPKDVICQEVKRVRPDFLVVGSRG 134

Query: 130 LGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           LG  ++V +G+VS   V ++ CPV  +K N
Sbjct: 135 LGRFQKVFVGTVSAFCVKHAECPVMTIKRN 164

Arabidopsis thaliana (taxid: 3702)

>sp|A0QZA1|Y3950_MYCS2 Universal stress protein MSMEG_3950/MSMEI_3859 OS=Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) GN=MSMEG_3950 PE=1 SV=1

 Score = 59.7 bits (143), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 51/156 (32%), Positives = 77/156 (49%), Gaps = 12/156 (7%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           VG+D+S  S AA+RWAA         I L+HV  P        +    G  +  + E +E
Sbjct: 12  VGVDSSAESDAAVRWAAREASLHDAPITLMHVIAPVV------VSWPAGPYMATVLECQE 65

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR 128
            N   ++ +    +V  + D L  T G  V  ++        L DA +  ++  +VVG+R
Sbjct: 66  EN--ARHAIEQAQKV--VADCLGETHGLTVQTEIRKESVARTLIDASKSAQM--VVVGNR 119

Query: 129 GLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSAK 164
           G+GAL RVLLGS S  ++  +S PV VV G+  +A 
Sbjct: 120 GMGALGRVLLGSTSTSLLHYASGPVVVVHGDDQAAH 155

Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (taxid: 246196)

>sp|Q57951|Y531_METJA Universal stress protein MJ0531 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0531 PE=3 SV=1

 Score = 53.5 bits (127), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 44/76 (57%)

Query: 82  EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSV 141
           E L  +  ++   G K+  ++  G P  ++ +  E  K D +V+G+ G   L+R+LLGSV
Sbjct: 90  EALKKVKKMAEEWGVKIHTEMLEGVPANEIVEFAEKKKADLIVMGTTGKTGLERILLGSV 149

Query: 142 SNHVVTNSSCPVTVVK 157
           +  V+ N+ CPV VVK
Sbjct: 150 AERVIKNAHCPVLVVK 165

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (taxid: 243232)

>sp|P42297|YXIE_BACSU Universal stress protein YxiE OS=Bacillus subtilis (strain 168) GN=yxiE PE=3 SV=1

 Score = 49.7 bits (117), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 55/103 (53%), Gaps = 5/103 (4%)

Query: 56  TGSPLVPLEEFREI-NFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDA 114
           TG   VP     EI N  K+ GL    ++L+     +  KG +       G+P  ++ + 
Sbjct: 50  TGIVYVPEHFIDEIRNEVKKEGL----KILENAKEKAAEKGVQAETIYANGEPAHEILNH 105

Query: 115 VEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
            ++  +  +VVGSRG+  LK ++LGSVS+ V   S+CPV +V+
Sbjct: 106 AKEKGVSLIVVGSRGISGLKEMMLGSVSHKVSQLSTCPVLIVR 148

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q57997|Y577_METJA Universal stress protein MJ0577 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0577 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 38/63 (60%)

Query: 95  GAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT 154
           G KV   +  G P E++    ED  +D +++GS G   LK +LLGSV+ +V+  S+ PV 
Sbjct: 96  GFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMGSHGKTNLKEILLGSVTENVIKKSNKPVL 155

Query: 155 VVK 157
           VVK
Sbjct: 156 VVK 158

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (taxid: 243232)

>sp|P74897|YQA3_THEAQ Universal stress protein in QAH/OAS sulfhydrylase 3'region OS=Thermus aquaticus PE=3 SV=1

 Score = 47.8 bits (112), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 34/58 (58%)

Query: 100 AKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           A +  G P E +  A    K D +V+G+RGLGA+  + LGS S  VV  + CPV +V+
Sbjct: 80  ALLLQGRPAEAILQAAIGEKADLIVMGTRGLGAVGSLFLGSQSQKVVAEAPCPVLLVR 137

Thermus aquaticus (taxid: 271)

>sp|P0A5F8|Y2019_MYCBO Universal stress protein Mb2019 OS=Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97) GN=Mb2019 PE=3 SV=1

 Score = 46.2 bits (108), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 39/150 (26%), Positives = 69/150 (46%), Gaps = 5/150 (3%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           VG+D SP S  A+ WAA +       + ++ V PP         FE +        E  E
Sbjct: 12  VGVDGSPCSHTAVEWAARDAQMRNVALRVVQVVPPVITAPEGWAFEYSRFQEAQKREIVE 71

Query: 69  INF--SKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVG 126
            ++  ++ + +      +  L+  S  + A++  +V  G     L +    + +  +V+G
Sbjct: 72  HSYLVAQAHQIVEQAHKV-ALEASSSGRAAQITGEVLHGQIVPTLANISRQVAM--VVLG 128

Query: 127 SRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
            RG GA+   LLGSVS+ +V ++  PV V+
Sbjct: 129 YRGQGAVAGALLGSVSSSLVRHAHGPVAVI 158

Mycobacterium bovis (taxid: 1765)

>sp|P0A5F7|Y1996_MYCTU Universal stress protein Rv1996/MT2052 OS=Mycobacterium tuberculosis GN=Rv1996 PE=1 SV=1

 Score = 46.2 bits (108), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 39/150 (26%), Positives = 69/150 (46%), Gaps = 5/150 (3%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           VG+D SP S  A+ WAA +       + ++ V PP         FE +        E  E
Sbjct: 12  VGVDGSPCSHTAVEWAARDAQMRNVALRVVQVVPPVITAPEGWAFEYSRFQEAQKREIVE 71

Query: 69  INF--SKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVG 126
            ++  ++ + +      +  L+  S  + A++  +V  G     L +    + +  +V+G
Sbjct: 72  HSYLVAQAHQIVEQAHKV-ALEASSSGRAAQITGEVLHGQIVPTLANISRQVAM--VVLG 128

Query: 127 SRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
            RG GA+   LLGSVS+ +V ++  PV V+
Sbjct: 129 YRGQGAVAGALLGSVSSSLVRHAHGPVAVI 158

Mycobacterium tuberculosis (taxid: 1773)

>sp|O53472|Y2026_MYCTU Universal stress protein Rv2026c/MT2085 OS=Mycobacterium tuberculosis GN=Rv2026c PE=2 SV=1

 Score = 45.4 bits (106), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 47/75 (62%), Gaps = 3/75 (4%)

Query: 86  ILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHV 145
           + ++L  +K  +V  ++ + +    L DA +   L  +VVGS+G+GAL R+LLGS+S  +
Sbjct: 79  LTNSLGESKPPQVHTELVFSNVVPTLIDASQQAWL--MVVGSQGMGALGRLLLGSISTAL 136

Query: 146 VTNSSCPVTVVK-GN 159
           + ++ CPV ++  GN
Sbjct: 137 LHHARCPVAIIHSGN 151

Mycobacterium tuberculosis (taxid: 1773)

>sp|P72817|Y1654_SYNY3 Universal stress protein Sll1654 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=sll1654 PE=3 SV=1

 Score = 44.3 bits (103), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 69/155 (44%), Gaps = 25/155 (16%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNL-IDSGDLIILIHVQ--PPNADHTRKQLFEDTGSPLV 61
           +T+   +D S  ++ A +  AD + I    LI+L  V+  PP  DH    +  D+   + 
Sbjct: 24  KTILFPLDRSREARDAAQMVADLVKIHQSQLILLSVVEKNPPGQDHEAHGM--DSPEAVA 81

Query: 62  PLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLD 121
            L E  +  FS+Q G+ +         T+ R   A              +CD  +++  D
Sbjct: 82  KLLEAAQAVFSQQ-GIATK--------TIEREGMASFT-----------ICDVADEVNAD 121

Query: 122 TLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
            +V+G RGLG     +  SV+  V+  S CPV VV
Sbjct: 122 LIVMGCRGLGLTTEGVAESVTARVINLSPCPVLVV 156

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	164
255575216	164	conserved hypothetical protein [Ricinus	0.963	0.963	0.829	4e-73
224134747	161	predicted protein [Populus trichocarpa]	0.969	0.987	0.830	1e-72
224077455	162	predicted protein [Populus trichocarpa]	0.969	0.981	0.837	4e-71
225466259	164	PREDICTED: universal stress protein A-li	0.987	0.987	0.759	9e-69
357491807	166	Universal stress protein A-like protein	0.963	0.951	0.772	1e-67
297832970	159	universal stress protein family protein	0.969	1.0	0.817	2e-67
30678807	159	adenine nucleotide alpha hydrolases-like	0.969	1.0	0.798	9e-67
351726313	166	uncharacterized protein LOC100500682 [Gl	0.987	0.975	0.765	2e-66
157849718	159	universal stress protein family protein	0.969	1.0	0.792	5e-66
388511741	172	unknown [Lotus japonicus]	0.896	0.854	0.768	4e-62

>gi|255575216|ref|XP_002528512.1| conserved hypothetical protein [Ricinus communis] gi|223532072|gb|EEF33881.1| conserved hypothetical protein [Ricinus communis]

 Score =  279 bits (713), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 131/158 (82%), Positives = 146/158 (92%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KA TVG+ MD SP SKAALRWAA+NLIDSGD+++LI VQPP ADHTRKQLFE TGSPL
Sbjct: 1   MEKACTVGIAMDYSPTSKAALRWAAENLIDSGDMVVLIQVQPPKADHTRKQLFEATGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEEFREIN+SKQYGL+ +PEVLD LDT+SRTKGAKVVAKVYWGDPREKLCDAV+DLKL
Sbjct: 61  VPLEEFREINYSKQYGLSRDPEVLDFLDTVSRTKGAKVVAKVYWGDPREKLCDAVDDLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG 158
           D+LV+GSRGLG +KR LLGSVSN+VVTN+SCPVTVVKG
Sbjct: 121 DSLVIGSRGLGPIKRELLGSVSNYVVTNASCPVTVVKG 158

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134747|ref|XP_002327479.1| predicted protein [Populus trichocarpa] gi|222836033|gb|EEE74454.1| predicted protein [Populus trichocarpa]

 Score =  277 bits (708), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 132/159 (83%), Positives = 146/159 (91%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KART GVGMD SP SKAALRWAA+NLID GD +ILI  QPP ADHTRKQLFE+ GSPL
Sbjct: 1   MGKARTFGVGMDFSPTSKAALRWAAENLIDEGDRVILIQAQPPKADHTRKQLFEENGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEEFREIN+SKQYGLT +PEVLDILDT+S+TKGAKVVAKVYWGDPREKL DAV+DLKL
Sbjct: 61  VPLEEFREINYSKQYGLTHDPEVLDILDTVSKTKGAKVVAKVYWGDPREKLIDAVDDLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           D+LV+GSRGLGA+KRVLLGSVS +VVTN+SCPVTVVKG+
Sbjct: 121 DSLVIGSRGLGAIKRVLLGSVSYYVVTNASCPVTVVKGS 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077455|ref|XP_002305257.1| predicted protein [Populus trichocarpa] gi|222848221|gb|EEE85768.1| predicted protein [Populus trichocarpa]

 Score =  272 bits (695), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 134/160 (83%), Positives = 146/160 (91%), Gaps = 1/160 (0%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KARTVG+GMD S  SKAALRWAA+NLI  GD IILI VQPPNADHTRKQLFE TGSPL
Sbjct: 1   MEKARTVGIGMDYSSTSKAALRWAAENLIGEGDRIILIQVQPPNADHTRKQLFEGTGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKG-AKVVAKVYWGDPREKLCDAVEDLK 119
           VPL EFR+INFSKQYGLT +PEVLDILDT+SRTKG A+VVAKVYWGDPREKL DAVEDLK
Sbjct: 61  VPLAEFRDINFSKQYGLTYDPEVLDILDTVSRTKGQAEVVAKVYWGDPREKLIDAVEDLK 120

Query: 120 LDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           LD+LV+GSRGLGA+KRVLLGSVSN+VVTN+ CPVTVVKG+
Sbjct: 121 LDSLVMGSRGLGAIKRVLLGSVSNYVVTNAPCPVTVVKGS 160

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225466259|ref|XP_002271154.1| PREDICTED: universal stress protein A-like protein [Vitis vinifera] gi|297738156|emb|CBI27357.3| unnamed protein product [Vitis vinifera]

 Score =  264 bits (675), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 123/162 (75%), Positives = 145/162 (89%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KAR +GVGMDNS NSK+ALRWA DNLID+ D +ILI+VQ P ++H +KQLFEDTGSPL
Sbjct: 1   MGKARAIGVGMDNSANSKSALRWAVDNLIDAEDCLILIYVQSPKSEHPKKQLFEDTGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEEFR+IN SKQYGL  +PEVLDILDT++R+KGAKVVAKVYWGDPREKLCDAV+DLKL
Sbjct: 61  VPLEEFRDINLSKQYGLNPDPEVLDILDTVARSKGAKVVAKVYWGDPREKLCDAVDDLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVS 162
           D LV+GSRGLG L+R+LLGSVSN+V+ ++SCPVTVVKG P +
Sbjct: 121 DCLVLGSRGLGVLRRILLGSVSNYVMVHASCPVTVVKGTPAT 162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357491807|ref|XP_003616191.1| Universal stress protein A-like protein [Medicago truncatula] gi|355517526|gb|AES99149.1| Universal stress protein A-like protein [Medicago truncatula] gi|388504360|gb|AFK40246.1| unknown [Medicago truncatula]

 Score =  260 bits (665), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 122/158 (77%), Positives = 139/158 (87%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M+KA  VGV MD SP SK ALRWA DNLI+  D II+I+VQPP+ADHTRK+LFEDTGSPL
Sbjct: 1   MAKAHIVGVAMDFSPTSKLALRWAVDNLINKNDQIIMINVQPPSADHTRKELFEDTGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEE REINF+KQYG+  +PEV+DIL+T S+ KGAKVVAKVYWGDPREKLC+AVEDL L
Sbjct: 61  VPLEELREINFTKQYGIAKDPEVIDILETASKIKGAKVVAKVYWGDPREKLCNAVEDLHL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG 158
           D+LV+GSRGLG +K VLLGSVS HVVTN+SCPVTVVKG
Sbjct: 121 DSLVIGSRGLGTIKSVLLGSVSKHVVTNASCPVTVVKG 158

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297832970|ref|XP_002884367.1| universal stress protein family protein [Arabidopsis lyrata subsp. lyrata] gi|297330207|gb|EFH60626.1| universal stress protein family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  259 bits (663), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 130/159 (81%), Positives = 144/159 (90%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KARTVGVGMD SP SK ALRWAA+NL++ GD +ILIHVQP NADHTRK LFEDTGSPL
Sbjct: 1   MGKARTVGVGMDYSPTSKLALRWAAENLLEDGDTVILIHVQPQNADHTRKILFEDTGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEEFREIN SKQYGL  +PEVLD+LDTLSR K  KVVAKVYWGDPREKLCDAVE+LKL
Sbjct: 61  VPLEEFREINLSKQYGLAYDPEVLDVLDTLSRAKKVKVVAKVYWGDPREKLCDAVENLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           D++V+GSRGLG+LKR+LLGSVSNHVVTN++CPVTVVK N
Sbjct: 121 DSIVLGSRGLGSLKRILLGSVSNHVVTNATCPVTVVKAN 159

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30678807|ref|NP_850506.1| adenine nucleotide alpha hydrolases-like protein [Arabidopsis thaliana] gi|6714413|gb|AAF26101.1|AC012328_4 unknown protein [Arabidopsis thaliana] gi|332640399|gb|AEE73920.1| adenine nucleotide alpha hydrolases-like protein [Arabidopsis thaliana]

 Score =  258 bits (658), Expect = 9e-67,   Method: Compositional matrix adjust.
 Identities = 127/159 (79%), Positives = 144/159 (90%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KARTVGVGMD SP SK ALRWAA+NL++ GD +ILIHVQP NADHTRK LFE+TGSPL
Sbjct: 1   MGKARTVGVGMDYSPTSKLALRWAAENLLEDGDTVILIHVQPQNADHTRKILFEETGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           +PLEEFRE+N SKQYGL  +PEVLD+LDTLSR K  KVVAKVYWGDPREKLCDAVE+LKL
Sbjct: 61  IPLEEFREVNLSKQYGLAYDPEVLDVLDTLSRAKKVKVVAKVYWGDPREKLCDAVENLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           D++V+GSRGLG+LKR+LLGSVSNHVVTN++CPVTVVK N
Sbjct: 121 DSIVLGSRGLGSLKRILLGSVSNHVVTNATCPVTVVKAN 159

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726313|ref|NP_001237890.1| uncharacterized protein LOC100500682 [Glycine max] gi|255630925|gb|ACU15825.1| unknown [Glycine max]

 Score =  256 bits (655), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 124/162 (76%), Positives = 139/162 (85%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M+KARTVGV +D SP SK ALR A DNLI+ GD IILI VQPP A HTRK+LFEDTGSPL
Sbjct: 1   MAKARTVGVAVDFSPTSKLALRRAVDNLINKGDQIILITVQPPQAHHTRKELFEDTGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           VPLEE RE+NF+KQYG+  +PEV+ ILDT S+TKGAK VAKVYWGDPREKLC+AVEDL L
Sbjct: 61  VPLEELRELNFTKQYGIARDPEVIGILDTASKTKGAKAVAKVYWGDPREKLCNAVEDLHL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVS 162
           D+LVVGSRGLG +KRVLLGSVS HV+TN+SCPVTVVKG   S
Sbjct: 121 DSLVVGSRGLGPIKRVLLGSVSKHVMTNASCPVTVVKGKQSS 162

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|157849718|gb|ABV89642.1| universal stress protein family protein [Brassica rapa]

 Score =  255 bits (651), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 126/159 (79%), Positives = 144/159 (90%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M KARTVGVGMD SP S++ALRW A+NL+D GD IILIHVQP NA+HTRK LFE+TGSPL
Sbjct: 1   MVKARTVGVGMDYSPTSRSALRWTAENLLDDGDTIILIHVQPQNAEHTRKILFEETGSPL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
           +PLEEFRE+NFSKQYGL  +PEVL++LDTLSR K  KVVAKVYWGDPREKLCDAVE+LKL
Sbjct: 61  IPLEEFREVNFSKQYGLAYDPEVLNVLDTLSRAKKVKVVAKVYWGDPREKLCDAVENLKL 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           D++V+GSRGLG LKR+LLGSVSNHVVTN++CPVTVVK N
Sbjct: 121 DSIVLGSRGLGPLKRMLLGSVSNHVVTNATCPVTVVKAN 159

Source: Brassica rapa

Species: Brassica rapa

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388511741|gb|AFK43932.1| unknown [Lotus japonicus]

 Score =  242 bits (618), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 113/147 (76%), Positives = 129/147 (87%)

Query: 11  MDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREIN 70
           MD SP  K ALRWA DNLI+ GD II+I+V+PPNADHTRK+LF + GSPLVP+EE REIN
Sbjct: 1   MDFSPTCKLALRWAVDNLINRGDQIIIINVEPPNADHTRKELFAENGSPLVPMEELREIN 60

Query: 71  FSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGL 130
           F+KQYG+  +PEV+DILDT SRTKGAK +AKVYWGDPREKLC AVEDL LD+LVVGSRGL
Sbjct: 61  FTKQYGIARDPEVIDILDTASRTKGAKAMAKVYWGDPREKLCSAVEDLHLDSLVVGSRGL 120

Query: 131 GALKRVLLGSVSNHVVTNSSCPVTVVK 157
           G +KRVL+GSVS HVVTN+SCPVTVVK
Sbjct: 121 GPIKRVLMGSVSKHVVTNASCPVTVVK 147

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	164
TAIR|locus:2097755	201	AT3G03270 [Arabidopsis thalian	0.823	0.671	0.792	2.3e-55
TAIR|locus:2084525	160	AT3G53990 "AT3G53990" [Arabido	0.969	0.993	0.540	3.2e-42
TAIR|locus:2086102	163	AT3G17020 "AT3G17020" [Arabido	0.963	0.969	0.503	4.3e-38
TAIR|locus:2024291	171	AT1G09740 "AT1G09740" [Arabido	0.908	0.871	0.363	2e-17
TAIR|locus:2200036	242	AT1G11360 [Arabidopsis thalian	0.932	0.632	0.339	2e-17
TAIR|locus:2199282	160	AT1G68300 "AT1G68300" [Arabido	0.914	0.937	0.369	3.7e-16
TAIR|locus:2076381	204	AT3G58450 "AT3G58450" [Arabido	0.908	0.730	0.347	1.3e-15
TAIR|locus:2096089	162	AT3G62550 "AT3G62550" [Arabido	0.908	0.919	0.325	1.3e-15
TAIR|locus:2147319	242	PHOS32 "AT5G54430" [Arabidopsi	0.890	0.603	0.343	1.1e-14
TAIR|locus:2131719	260	PHOS34 "AT4G27320" [Arabidopsi	0.926	0.584	0.329	6.2e-14

TAIR|locus:2097755 AT3G03270 [Arabidopsis thaliana (taxid:3702)]

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 107/135 (79%), Positives = 121/135 (89%)

Query:     1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
             M KARTVGVGMD SP SK ALRWAA+NL++ GD +ILIHVQP NADHTRK LFE+TGSPL
Sbjct:     1 MGKARTVGVGMDYSPTSKLALRWAAENLLEDGDTVILIHVQPQNADHTRKILFEETGSPL 60

Query:    61 VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
             +PLEEFRE+N SKQYGL  +PEVLD+LDTLSR K  KVVAKVYWGDPREKLCDAVE+LKL
Sbjct:    61 IPLEEFREVNLSKQYGLAYDPEVLDVLDTLSRAKKVKVVAKVYWGDPREKLCDAVENLKL 120

Query:   121 DTLVVGSRGLGALKR 135
             D++V+GSRGLG+LKR
Sbjct:   121 DSIVLGSRGLGSLKR 135

GO:0005737 "cytoplasm" evidence=ISM

GO:0016020 "membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0002238 "response to molecule of fungal origin" evidence=RCA

TAIR|locus:2084525 AT3G53990 "AT3G53990" [Arabidopsis thaliana (taxid:3702)]

 Score = 447 (162.4 bits), Expect = 3.2e-42, P = 3.2e-42
 Identities = 86/159 (54%), Positives = 116/159 (72%)

Query:     1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
             M K R +G+ MD S +SK AL+WA +NL D GD I +IH  P + D +R  L+  +GSPL
Sbjct:     1 MPKDRNIGIAMDFSESSKNALKWAIENLADKGDTIYIIHTLPLSGDESRNSLWFKSGSPL 60

Query:    61 VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
             +PL EFRE    ++YG+ ++   LD+LDT SR K   VV K+YWGD REKL DAV+DLKL
Sbjct:    61 IPLAEFREPEIMEKYGVKTDIACLDMLDTGSRQKEVHVVTKLYWGDAREKLVDAVKDLKL 120

Query:   121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
             D++V+GSRGL AL+R+++GSVS+ V+ ++ CPVTVVK N
Sbjct:   121 DSIVMGSRGLSALQRIIMGSVSSFVIQHAPCPVTVVKDN 159

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0009409 "response to cold" evidence=IEP

GO:0009506 "plasmodesma" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2086102 AT3G17020 "AT3G17020" [Arabidopsis thaliana (taxid:3702)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 80/159 (50%), Positives = 107/159 (67%)

Query:     2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHV-QPPNADHTRKQLFEDTGSPL 60
             S  R +GV +D S  SK AL WA DN++  GD +ILI +    N +    QL+E  GSP 
Sbjct:     4 SGGRRIGVAVDFSDCSKKALSWAIDNVVRDGDHLILITIAHDMNYEEGEMQLWETVGSPF 63

Query:    61 VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
             +P+ EF +    K+Y L  + E LDI++T +R K   VV K+YWGDPREK+C A E + L
Sbjct:    64 IPMSEFSDAAVMKKYALKPDAETLDIVNTAARKKTITVVMKIYWGDPREKICAAAEQIPL 123

Query:   121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
              +LV+G+RGLG LKR+++GSVSNHVV N +CPVTVVK +
Sbjct:   124 SSLVMGNRGLGGLKRMIMGSVSNHVVNNVACPVTVVKAH 162

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0009409 "response to cold" evidence=IEP

GO:0005886 "plasma membrane" evidence=IDA

GO:0002238 "response to molecule of fungal origin" evidence=RCA

GO:0006623 "protein targeting to vacuole" evidence=RCA

TAIR|locus:2024291 AT1G09740 "AT1G09740" [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 57/157 (36%), Positives = 81/157 (51%)

Query:     7 VGVGMDNSPNSKAALRWAADNL---IDSGDL-IILIHVQP-PNADHTRKQLFEDTGSPL- 60
             V V +D S  S  ALRWA DNL     S D   +++HVQP P+            G P  
Sbjct:    10 VVVAVDGSEVSMEALRWALDNLKLSSSSSDSSFVVLHVQPSPSVAAGVSPGTIPFGGPSG 69

Query:    61 VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
             + +  F       Q  +T    +L+    +   K   V  +V  GDP+ K+C+AVE+L  
Sbjct:    70 LEVPAFTAAIEQHQKRITDT--ILEHASQICAEKSVNVKTQVVIGDPKYKICEAVENLHA 127

Query:   121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
             D LV+GSR  G +KR+ LGSVSN+   ++ CPV ++K
Sbjct:   128 DLLVMGSRAYGRIKRMFLGSVSNYCTNHAHCPVVIIK 164

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0002238 "response to molecule of fungal origin" evidence=RCA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2200036 AT1G11360 [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 53/156 (33%), Positives = 80/156 (51%)

Query:     5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
             R +G+ +D S  S  A++WA  N + SGD ++L+HVQP +  +       D      P  
Sbjct:    38 RKIGIAVDLSDESAYAVQWAVQNYLRSGDAVVLLHVQPTSVLYGADWGAMDLSPQWDPNN 97

Query:    65 EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
             E  +      + + +N +  D+   L        +  V   D +E+LC  VE L L TL+
Sbjct:    98 EESQRKLEDDFDIVTNKKASDVAQPLVEADIPFKIHIVKDHDMKERLCLEVERLGLSTLI 157

Query:   125 VGSRGLGALKRVL---LGSVSNHVVTNSSCPVTVVK 157
             +GSRG GA KR     LGSVS++ V + +CPV VV+
Sbjct:   158 MGSRGFGATKRSSKGRLGSVSDYSVHHCACPVVVVR 193

GO:0005634 "nucleus" evidence=ISM

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0002238 "response to molecule of fungal origin" evidence=RCA

GO:0016925 "protein sumoylation" evidence=RCA

TAIR|locus:2199282 AT1G68300 "AT1G68300" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 3.7e-16, P = 3.7e-16
 Identities = 58/157 (36%), Positives = 81/157 (51%)

Query:     2 SKARTVGVGMDNSPNSKAALRWAADNLIDS-GDLIILIHVQPPNADHTRKQLFEDTGSPL 60
             S  + V V +D S  SK AL+W    L DS  D  I++    P+ D +         +P+
Sbjct:     7 SVMKQVMVAIDESECSKRALQWTLVYLKDSLADSDIILFTAQPHLDLSCVYASSYGAAPI 66

Query:    61 VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
               +   +E +  K  GL    E   I      T   KV+    +G+P+E +C+A E L +
Sbjct:    67 ELINSLQESH--KNAGLNRLDEGTKICAETGVTP-RKVLE---FGNPKEAICEAAEKLGV 120

Query:   121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
             D LVVGS G GAL+R  LGSVSN+ V N+ CPV VV+
Sbjct:   121 DMLVVGSHGKGALQRTFLGSVSNYCVNNAKCPVLVVR 157

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0002238 "response to molecule of fungal origin" evidence=RCA

TAIR|locus:2076381 AT3G58450 "AT3G58450" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 58/167 (34%), Positives = 81/167 (48%)

Query:     3 KARTVGVGMDNSPNSKAALRWAADNL---IDS-------GDLIILIHVQPPNADHTRKQL 52
             K   V V +D S NS  AL WA D+L   I +       G L+ L+HV P    +     
Sbjct:    28 KKLKVMVAIDESKNSFDALEWAVDHLRVVISAEPETGQEGGLLTLLHVHPTYLQYIYPS- 86

Query:    53 FEDTGSPLVPLEEFREINFSKQYGLTSN--PEVLDILDTLSRTKGAKVVAKVYWGDPREK 110
                T S +   +   E     +   T+N     L+I     R K  K    +  GDP+E 
Sbjct:    87 -GGTASAVYATDSVPEPMRKAREESTTNLFTRALEIC----RGKMVKTETMILEGDPKEM 141

Query:   111 LCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
             +C AVE   +D LVVGSRGLG +KR  LGSVS++   ++ CP+ +V+
Sbjct:   142 ICQAVEQTHVDLLVVGSRGLGMIKRAFLGSVSDYCAQHAKCPILIVR 188

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2096089 AT3G62550 "AT3G62550" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 52/160 (32%), Positives = 82/160 (51%)

Query:     2 SKARTVGVGMDNSPNSKAALRWAADNLIDSG--DLIILIHVQPPNADHTRKQL--FEDTG 57
             +K R + V +D S  S  AL W+ DNL   G  + +IL++V+PP   ++      F  TG
Sbjct:     4 TKERKIVVAVDESEESMEALSWSLDNLFPYGSNNTLILLYVKPPLPVYSSLDAAGFIVTG 63

Query:    58 SPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVED 117
              P+  L+++ E    +     S     D    ++      +  +V  GD +E +C+AV+ 
Sbjct:    64 DPVAALKKY-EYELVESVMARSRTVYQDYESDIN------IERRVGRGDAKEVICNAVQK 116

Query:   118 LKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
             L++D LV+G+   G  KR LLGSVS +      CPV +VK
Sbjct:   117 LRVDMLVMGTHDYGFFKRALLGSVSEYCAKRVKCPVVIVK 156

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0005773 "vacuole" evidence=IDA

GO:0002238 "response to molecule of fungal origin" evidence=RCA

TAIR|locus:2147319 PHOS32 "AT5G54430" [Arabidopsis thaliana (taxid:3702)]

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 56/163 (34%), Positives = 83/163 (50%)

Query:     5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
             R +GV +D S  S  A+RWA D+ I  GD ++L+HV P +       LF     PL PL+
Sbjct:    48 RKIGVAVDLSEESSFAVRWAVDHYIRPGDAVVLLHVSPTSV------LFGADWGPL-PLK 100

Query:    65 -EFREINFSKQ-----YGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDL 118
              +  + N   Q     +   ++ +V D+   L        +  V   D RE+LC  +E L
Sbjct:   101 TQIEDPNAQPQPSQEDFDAFTSTKVADLAKPLKELGFPYKIHIVKDHDMRERLCLEIERL 160

Query:   119 KLDTLVVGSRGLGALKRV----LLGSVSNHVVTNSSCPVTVVK 157
              L  +++GSRG GA K+      LGSVS++ V +  CPV VV+
Sbjct:   161 GLSAVIMGSRGFGAEKKRGSDGKLGSVSDYCVHHCVCPVVVVR 203

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA;IDA

GO:0002238 "response to molecule of fungal origin" evidence=RCA;IDA

TAIR|locus:2131719 PHOS34 "AT4G27320" [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 53/161 (32%), Positives = 81/161 (50%)

Query:     5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN----ADHTRKQLFEDTGSPL 60
             R +GV +D S  S  A+RWA D+ I  GD ++++HV P +    AD     L +    P 
Sbjct:    45 RKIGVAVDLSEESAFAVRWAVDHYIRPGDAVVILHVSPTSVLFGADWGPLPL-QTPPPPS 103

Query:    61 VPLEEFREINFSKQ-YGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLK 119
                +   +   S++ +   ++ +V D+   L        +  V   D RE+LC   E L 
Sbjct:   104 AATDPGAQPKPSQEDFDAFTSSKVADLAKPLKEAGFPHKIHIVKDHDMRERLCLETERLN 163

Query:   120 LDTLVVGSRGLGALKRVL---LGSVSNHVVTNSSCPVTVVK 157
             L  +++GSRG GA KR     LGSVS++ V +  CPV VV+
Sbjct:   164 LSAVIMGSRGFGAEKRGSDGKLGSVSDYCVHHCVCPVVVVR 204

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0002238 "response to molecule of fungal origin" evidence=RCA;IDA

GO:0000902 "cell morphogenesis" evidence=RCA

GO:0016049 "cell growth" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_440069 hypothetical protein (161 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	164
pfam00582	139	pfam00582, Usp, Universal stress protein family	5e-30
cd00293	130	cd00293, USP_Like, Usp: Universal stress protein f	1e-29
COG0589	154	COG0589, UspA, Universal stress protein UspA and r	6e-18
cd01989	146	cd01989, STK_N, The N-terminal domain of Eukaryoti	2e-08

>gnl|CDD|216006 pfam00582, Usp, Universal stress protein family

 Score =  106 bits (265), Expect = 5e-30
 Identities = 45/153 (29%), Positives = 69/153 (45%), Gaps = 16/153 (10%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + + V +D S  S+ AL WA +     G  +IL+HV  P       +  E+     +  E
Sbjct: 3   KRILVAVDGSEESERALEWALELAKRRGAELILLHVIDPEPSGAASEALEEEEEEELEEE 62

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
           E                   + L   +   G  V   V  GDP E + +  E+   D +V
Sbjct: 63  E----------------AEAEALAAAAEAGGVVVEVVVRGGDPAEAILEVAEEEDADLIV 106

Query: 125 VGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           +GSRG   L+R+LLGSV+  V+ ++ CPV VV+
Sbjct: 107 MGSRGRSGLRRLLLGSVAEKVLRHAPCPVLVVR 139

The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, though UspA lacks ATP-binding activity. Length = 139

>gnl|CDD|238182 cd00293, USP_Like, Usp: Universal stress protein family

 Score =  105 bits (263), Expect = 1e-29
 Identities = 49/151 (32%), Positives = 67/151 (44%), Gaps = 21/151 (13%)

Query: 6   TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEE 65
            + V +D S  S+ ALRWAA      G  ++L+HV  P      +            LE 
Sbjct: 1   RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAAELAELLEEEARALLEA 60

Query: 66  FREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVV 125
            RE                          G KV   V  GDP E + +A E+L  D +V+
Sbjct: 61  LREAL---------------------AEAGVKVETVVLEGDPAEAILEAAEELGADLIVM 99

Query: 126 GSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
           GSRG   L+R+LLGSV+  V+ ++ CPV VV
Sbjct: 100 GSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130

The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity. Length = 130

>gnl|CDD|223662 COG0589, UspA, Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]

 Score = 75.4 bits (185), Expect = 6e-18
 Identities = 41/162 (25%), Positives = 67/162 (41%), Gaps = 11/162 (6%)

Query: 1   MSKARTVGVGMD-NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSP 59
            +  + + V +D  S  ++ AL  A       G  +IL+ V  P          E T   
Sbjct: 2   PAMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDP---------LEPTALV 52

Query: 60  LVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPR-EKLCDAVEDL 118
            V L +       ++    +   + +            V  +V  G P  E++ +  E+ 
Sbjct: 53  SVALADAPIPLSEEELEEEAEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEE 112

Query: 119 KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP 160
             D +VVGSRG   L R+LLGSV+  V+ ++ CPV VV+   
Sbjct: 113 DADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRSEG 154

Length = 154

>gnl|CDD|238947 cd01989, STK_N, The N-terminal domain of Eukaryotic Serine Threonine kinases

 Score = 50.4 bits (121), Expect = 2e-08
 Identities = 42/158 (26%), Positives = 57/158 (36%), Gaps = 17/158 (10%)

Query: 6   TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEE 65
           +V V +D    SK AL+WA DNL   G  I+L+HV PP            T  P     +
Sbjct: 1   SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPI-----------TSIP-SSSGK 48

Query: 66  FREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLKLDTLV 124
               +  KQ       E+L         KG +    V    D  + + + V D  +  LV
Sbjct: 49  LEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLV 108

Query: 125 VGSRGLGALKRVLLGSVSNHVV---TNSSCPVTVV-KG 158
           +G+            S     V       C V VV KG
Sbjct: 109 MGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSKG 146

The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding. Length = 146

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	164
PRK15005	144	universal stress protein F; Provisional	99.95
PRK15456	142	universal stress protein UspG; Provisional	99.95
PRK09982	142	universal stress protein UspD; Provisional	99.95
cd01989	146	STK_N The N-terminal domain of Eukaryotic Serine T	99.95
PRK15118	144	universal stress global response regulator UspA; P	99.94
PF00582	140	Usp: Universal stress protein family; InterPro: IP	99.94
PRK10116	142	universal stress protein UspC; Provisional	99.93
cd01988	132	Na_H_Antiporter_C The C-terminal domain of a subfa	99.93
PRK11175	305	universal stress protein UspE; Provisional	99.92
cd01987	124	USP_OKCHK USP domain is located between the N-term	99.91
PRK11175	305	universal stress protein UspE; Provisional	99.88
cd00293	130	USP_Like Usp: Universal stress protein family. The	99.87
COG0589	154	UspA Universal stress protein UspA and related nuc	99.86
PRK12652	357	putative monovalent cation/H+ antiporter subunit E	99.74
PRK10490	895	sensor protein KdpD; Provisional	99.55
COG2205	890	KdpD Osmosensitive K+ channel histidine kinase [Si	99.51
cd01984	86	AANH_like Adenine nucleotide alpha hydrolases supe	98.81
PLN03159	832	cation/H(+) antiporter 15; Provisional	98.26
TIGR02432	189	lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-t	97.81
PF01171	182	ATP_bind_3: PP-loop family; InterPro: IPR011063 Th	97.72
cd01992	185	PP-ATPase N-terminal domain of predicted ATPase of	97.49
PLN03159	832	cation/H(+) antiporter 15; Provisional	97.47
cd01993	185	Alpha_ANH_like_II This is a subfamily of Adenine n	97.03
PRK12342	254	hypothetical protein; Provisional	96.89
PRK03359	256	putative electron transfer flavoprotein FixA; Revi	96.7
COG0037	298	MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle	96.67
PF01012	164	ETF: Electron transfer flavoprotein domain; InterP	96.31
COG2086	260	FixA Electron transfer flavoprotein, beta subunit	96.14
PRK10696	258	tRNA 2-thiocytidine biosynthesis protein TtcA; Pro	96.08
PRK10660	436	tilS tRNA(Ile)-lysidine synthetase; Provisional	95.87
PRK05253	301	sulfate adenylyltransferase subunit 2; Provisional	95.65
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.14
PRK07313	182	phosphopantothenoylcysteine decarboxylase; Validat	95.07
TIGR00268	252	conserved hypothetical protein TIGR00268. The N-te	94.87
cd01995	169	ExsB ExsB is a transcription regulator related pro	94.83
TIGR00591	454	phr2 photolyase PhrII. All proteins in this family	94.82
PRK13820	394	argininosuccinate synthase; Provisional	94.77
cd01985	181	ETF The electron transfer flavoprotein (ETF) serve	94.35
PRK14665	360	mnmA tRNA-specific 2-thiouridylase MnmA; Provision	94.27
COG1927	277	Mtd Coenzyme F420-dependent N(5),N(10)-methenyltet	94.19
cd01990	202	Alpha_ANH_like_I This is a subfamily of Adenine nu	93.96
TIGR02039	294	CysD sulfate adenylyltransferase, small subunit. I	93.95
COG0041	162	PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) m	93.78
cd01713	173	PAPS_reductase This domain is found in phosphoaden	93.77
TIGR02113	177	coaC_strep phosphopantothenoylcysteine decarboxyla	93.44
TIGR02852	187	spore_dpaB dipicolinic acid synthetase, B subunit.	93.29
KOG1650	769	consensus Predicted K+/H+-antiporter [Inorganic io	93.27
TIGR01162	156	purE phosphoribosylaminoimidazole carboxylase, Pur	93.16
PRK10867	433	signal recognition particle protein; Provisional	93.0
PRK05579	399	bifunctional phosphopantothenoylcysteine decarboxy	92.66
PF00875	165	DNA_photolyase: DNA photolyase from Prosite.; Inte	92.03
PRK00779	304	ornithine carbamoyltransferase; Provisional	92.0
COG0299	200	PurN Folate-dependent phosphoribosylglycinamide fo	92.0
PRK08305	196	spoVFB dipicolinate synthase subunit B; Reviewed	91.77
PRK12563	312	sulfate adenylyltransferase subunit 2; Provisional	91.76
PF02601	319	Exonuc_VII_L: Exonuclease VII, large subunit; Inte	91.34
PF00731	150	AIRC: AIR carboxylase; InterPro: IPR000031 Phospho	91.19
TIGR00342	371	thiazole biosynthesis/tRNA modification protein Th	91.13
TIGR00959	428	ffh signal recognition particle protein. This mode	91.09
PRK00994	277	F420-dependent methylenetetrahydromethanopterin de	90.71
PLN00200	404	argininosuccinate synthase; Provisional	90.66
PRK13982	475	bifunctional SbtC-like/phosphopantothenoylcysteine	90.51
cd01986	103	Alpha_ANH_like Adenine nucleotide alpha hydrolases	90.51
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	90.38
TIGR00032	394	argG argininosuccinate synthase. argG in bacteria,	90.14
TIGR03556	471	photolyase_8HDF deoxyribodipyrimidine photo-lyase,	89.82
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	89.81
TIGR00884	311	guaA_Cterm GMP synthase (glutamine-hydrolyzing), C	89.57
PRK00143	346	mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed	89.3
cd01712	177	ThiI ThiI is required for thiazole synthesis in th	89.19
cd01994	194	Alpha_ANH_like_IV This is a subfamily of Adenine n	89.07
PRK09590	104	celB cellobiose phosphotransferase system IIB comp	88.34
TIGR02765	429	crypto_DASH cryptochrome, DASH family. Photolyases	88.32
PRK06029	185	3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Prov	87.67
PF12683	275	DUF3798: Protein of unknown function (DUF3798); In	87.07
PRK00074	511	guaA GMP synthase; Reviewed	86.83
PRK08576	438	hypothetical protein; Provisional	86.51
TIGR02699	174	archaeo_AfpA archaeoflavoprotein AfpA. The prototy	86.29
PRK06027	286	purU formyltetrahydrofolate deformylase; Reviewed	85.92
TIGR00521	390	coaBC_dfp phosphopantothenoylcysteine decarboxylas	85.92
cd05565	99	PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of en	85.39
TIGR00853	95	pts-lac PTS system, lactose/cellobiose family IIB	85.33
PRK00286	438	xseA exodeoxyribonuclease VII large subunit; Revie	85.25
cd01997	295	GMP_synthase_C The C-terminal domain of GMP synthe	85.22
), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ...." target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF02844">PF02844	100	GARS_N: Phosphoribosylglycinamide synthetase, N do	84.66
PRK00919	307	GMP synthase subunit B; Validated	84.64
cd01715	168	ETF_alpha The electron transfer flavoprotein (ETF)	84.59
PRK00109	138	Holliday junction resolvase-like protein; Reviewed	84.29
TIGR00420	352	trmU tRNA (5-methylaminomethyl-2-thiouridylate)-me	83.91
PRK08349	198	hypothetical protein; Validated	83.61
PRK13010	289	purU formyltetrahydrofolate deformylase; Reviewed	83.23
TIGR00237	432	xseA exodeoxyribonuclease VII, large subunit. This	83.11
KOG1467	556	consensus Translation initiation factor 2B, delta	83.05
COG1606	269	ATP-utilizing enzymes of the PP-loop superfamily [	82.56
TIGR00655	280	PurU formyltetrahydrofolate deformylase. This mode	82.54
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	82.45
PF03652	135	UPF0081: Uncharacterised protein family (UPF0081);	82.08
PRK11070	575	ssDNA exonuclease RecJ; Provisional	81.95
COG1597	301	LCB5 Sphingosine kinase and enzymes related to euk	81.46
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	81.2
TIGR00930	953	2a30 K-Cl cotransporter.	81.14
COG1570	440	XseA Exonuclease VII, large subunit [DNA replicati	80.99
PRK11914	306	diacylglycerol kinase; Reviewed	80.6
PRK14664	362	tRNA-specific 2-thiouridylase MnmA; Provisional	80.57
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	80.41
cd05564	96	PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lic	80.2
COG0042	323	tRNA-dihydrouridine synthase [Translation, ribosom	80.16
COG2876	286	AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (	80.08

>PRK15005 universal stress protein F; Provisional

Probab=99.95  E-value=2.1e-27  Score=155.80  Aligned_cols=141  Identities=18%  Similarity=0.253  Sum_probs=103.6

Q ss_pred             CcEEEEEecCChh--hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            4 ARTVGVGMDNSPN--SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         4 ~~~ILv~~d~s~~--s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |++||+|+|+|+.  +..|+++|..+|+..+++++++||.++......      .+......  ....+...    +..+
T Consensus         2 ~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~------~~~~~~~~--~~~~~~~~----~~~~   69 (144)
T PRK15005          2 NRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYAS------LGLAYSAE--LPAMDDLK----AEAK   69 (144)
T ss_pred             CccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCccccc------cccccccc--chHHHHHH----HHHH
Confidence            7999999999997  579999999999999999999999976432110      00000000  00000001    1122


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      +.++.+.+.+...+++++.++..|++.+.|++++++.++||||||++ ++++.+.++||++++|+++++||||++|
T Consensus        70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~~llGS~a~~vl~~a~cpVlvVr  144 (144)
T PRK15005         70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH-RPDITTYLLGSNAAAVVRHAECSVLVVR  144 (144)
T ss_pred             HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC-CCCchheeecchHHHHHHhCCCCEEEeC
Confidence            33333333444456778888999999999999999999999999988 4567888999999999999999999986

>PRK15456 universal stress protein UspG; Provisional

Probab=99.95  E-value=1e-27  Score=157.01  Aligned_cols=140  Identities=25%  Similarity=0.324  Sum_probs=104.0

Q ss_pred             CCcEEEEEecCCh--hhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            3 KARTVGVGMDNSP--NSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         3 ~~~~ILv~~d~s~--~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      ||++||||+|+|+  .+..|+++|..+|+.. ++++++||.++.....    .   .........+      .+...+..
T Consensus         1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~----~---~~~~~~~~~~------~~~~~~~~   66 (142)
T PRK15456          1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLS----L---HRFAADVRRF------EEHLQHEA   66 (142)
T ss_pred             CCccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCccccc----c---cccccchhhH------HHHHHHHH
Confidence            3899999999994  8999999999999874 6999999997653211    0   0000000111      11111222


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ++.++.+.+.+...+.++++++..|++.++|.+++++.++||||||+++++ +.++++||++++|+++++||||+||
T Consensus        67 ~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~  142 (142)
T PRK15456         67 EERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR  142 (142)
T ss_pred             HHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence            334444444444457788888999999999999999999999999999876 6778999999999999999999986

>PRK09982 universal stress protein UspD; Provisional

Probab=99.95  E-value=2.8e-27  Score=154.97  Aligned_cols=141  Identities=16%  Similarity=0.157  Sum_probs=101.6

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |+|++||||+|+|+.+..|+++|..+|+..+++++++||.++......       +.........      .+...+..+
T Consensus         1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~-------~~~~~~~~~~------~~~~~~~~~   67 (142)
T PRK09982          1 MAYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYP-------GIYFPATEDI------LQLLKNKSD   67 (142)
T ss_pred             CCceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhch-------hhhccchHHH------HHHHHHHHH
Confidence            358999999999999999999999999999999999999876432110       0000000111      111111122


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      +.++.+.+.+.  ...++.++..|+|.+.|++++++.++||||||++ ++++.+++ | ++++|+++++||||+||...
T Consensus        68 ~~l~~~~~~~~--~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~~~  141 (142)
T PRK09982         68 NKLYKLTKNIQ--WPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPFID  141 (142)
T ss_pred             HHHHHHHHhcC--CCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecCCC
Confidence            33333333332  2356677888999999999999999999999986 77776665 5 99999999999999999754

>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases

Probab=99.95  E-value=1.7e-26  Score=151.84  Aligned_cols=141  Identities=28%  Similarity=0.401  Sum_probs=110.3

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|||++|+|+.+..|++||+.+|+..+++++++|+.++......    . .+   .. . ...  ...+...+..++.++
T Consensus         1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~----~-~~---~~-~-~~~--~~~~~~~~~~~~~l~   68 (146)
T cd01989           1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPS----S-SG---KL-E-VAS--AYKQEEDKEAKELLL   68 (146)
T ss_pred             CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCC----C-cc---ch-H-HHH--HHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999876532210    0 00   00 0 000  111112223455666


Q ss_pred             HHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHhcCCCEEEEeecCCccccceeec-cchhHHhcCCC--ccEEEEeC
Q 031202           86 ILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLG-SVSNHVVTNSS--CPVTVVKG  158 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~g-s~~~~v~~~~~--~pVliv~~  158 (164)
                      .+.+.+...+++++..+..| ++.++|++++++.++|+||||+++++++.++++| |++.+|+++++  |||++|++
T Consensus        69 ~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~  145 (146)
T cd01989          69 PYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK  145 (146)
T ss_pred             HHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence            66667777789999888776 8999999999999999999999999999888887 69999999999  99999986

The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.

>PRK15118 universal stress global response regulator UspA; Provisional

Probab=99.94  E-value=1.5e-26  Score=151.86  Aligned_cols=139  Identities=22%  Similarity=0.223  Sum_probs=100.0

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |+|++||||+|+|+.+..|+++|..+|+..+++++++||..+.....       .+........+.         ++..+
T Consensus         1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~-------~~~~~~~~~~~~---------~~~~~   64 (144)
T PRK15118          1 MAYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLY-------TGLIDVNLGDMQ---------KRISE   64 (144)
T ss_pred             CCceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhhh-------hhhhhcchHHHH---------HHHHH
Confidence            45899999999999999999999999999999999999943321110       000000000000         01122


Q ss_pred             hHHHHHHHHhhhcCceEE-EEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           82 EVLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ...+.+.+.....|+.+. ..+..|++.++|++++++.++||||||+++ +.+. . +||++++|+++++||||+||.+
T Consensus        65 ~~~~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~~~  140 (144)
T PRK15118         65 ETHHALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVPLR  140 (144)
T ss_pred             HHHHHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEecCC
Confidence            333445555556677754 445689999999999999999999999995 3333 3 5799999999999999999864

>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents

Probab=99.94  E-value=7e-26  Score=146.81  Aligned_cols=140  Identities=28%  Similarity=0.391  Sum_probs=105.5

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      |+++|||++|+++.+..++++|..+|+..+++|+++|+.+......               ...................
T Consensus         1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~   65 (140)
T PF00582_consen    1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYS---------------FSAAEDEESEEEAEEEEQA   65 (140)
T ss_dssp             -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHH---------------HHHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccc---------------cccccccccccccchhhhh
Confidence            4799999999999999999999999999999999999999885432               0011100000000000000


Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ............+......+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++|||||||
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~  140 (140)
T PF00582_consen   66 RQAEAEEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP  140 (140)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred             hhHHHHHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence            000012233344667777788999999999999999999999999998999999999999999999999999997

UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....

>PRK10116 universal stress protein UspC; Provisional

Probab=99.93  E-value=1.6e-25  Score=146.53  Aligned_cols=139  Identities=15%  Similarity=0.163  Sum_probs=104.0

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |+|++|||++|+++.+..++++|..+|+.++++++++|+.+......        ...    ... .    ++..+...+
T Consensus         1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~--------~~~----~~~-~----~~~~~~~~~   63 (142)
T PRK10116          1 MSYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN--------QFA----APM-L----EDLRSVMQE   63 (142)
T ss_pred             CCCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch--------hhh----HHH-H----HHHHHHHHH
Confidence            45899999999999999999999999999999999999986642210        000    000 0    011111122


Q ss_pred             hHHHHHHHHhhhcCceEE-EEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           82 EVLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      +..+.+.+.....|++.. ..+..|++.++|++++++.++||||||+++++++.+++  |++++|+++++||||+||.+
T Consensus        64 ~~~~~l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~~~  140 (142)
T PRK10116         64 ETQSFLDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVPLT  140 (142)
T ss_pred             HHHHHHHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEeCC
Confidence            333445555556677654 45678999999999999999999999999988777643  78999999999999999864

>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea

Probab=99.93  E-value=1.7e-24  Score=139.75  Aligned_cols=131  Identities=20%  Similarity=0.259  Sum_probs=108.9

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +||||+|+++++..++++|..+|+..+++|+++|+.+......           . ....         ...+..++.++
T Consensus         1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~-----------~-~~~~---------~~~~~~~~~~~   59 (132)
T cd01988           1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSS-----------P-SQLE---------VNVQRARKLLR   59 (132)
T ss_pred             CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCC-----------c-chhH---------HHHHHHHHHHH
Confidence            6999999999999999999999999999999999998764221           0 0000         00123456677


Q ss_pred             HHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           86 ILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      .+.+.+...|++++..+. .|++.++|.+++++.++|+||||+++++++.++++||++.+|+++++|||++++
T Consensus        60 ~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~  132 (132)
T cd01988          60 QAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK  132 (132)
T ss_pred             HHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence            777777788999888765 479999999999999999999999999988889999999999999999999985

Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio

>PRK11175 universal stress protein UspE; Provisional

Probab=99.92  E-value=9.4e-25  Score=159.55  Aligned_cols=147  Identities=19%  Similarity=0.155  Sum_probs=110.6

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |++++|||++|+|+.+..|+++|+.+|+..+++++++|+.+......       .+.  .......   ...+...+..+
T Consensus         1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~-------~~~--~~~~~~~---~~~~~~~~~~~   68 (305)
T PRK11175          1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEM-------TTL--LSPDERE---AMRQGVISQRT   68 (305)
T ss_pred             CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhh-------hcc--cchhHHH---HHHHHHHHHHH
Confidence            45899999999999999999999999999999999999986543211       000  0000000   00011111123


Q ss_pred             hHHHHHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      +.++.+.+.+...+++++..+. .|++.++|.+++++.++||||||+++.+++.+.++||++.+|+++++||||++|...
T Consensus        69 ~~l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~~  148 (305)
T PRK11175         69 AWIREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQD  148 (305)
T ss_pred             HHHHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecccc
Confidence            3344444455567888888766 589999999999999999999999999889999999999999999999999999754

>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family

Probab=99.91  E-value=5.4e-24  Score=136.29  Aligned_cols=123  Identities=19%  Similarity=0.234  Sum_probs=103.0

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +||||+|+++.+..++++|+.+|+..+++|+++|+.++....                            ..+..++.++
T Consensus         1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~----------------------------~~~~~~~~l~   52 (124)
T cd01987           1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNR----------------------------LSEAERRRLA   52 (124)
T ss_pred             CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCcccc----------------------------CCHHHHHHHH
Confidence            699999999999999999999999999999999998764210                            0011234556


Q ss_pred             HHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCC-CccEEEEe
Q 031202           86 ILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNS-SCPVTVVK  157 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~-~~pVliv~  157 (164)
                      .+.+.+.+.++++.. +..|++.++|.+++++.++|+||||+++++++.++++||++++|++++ +|||||++
T Consensus        53 ~~~~~~~~~~~~~~~-~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~  124 (124)
T cd01987          53 EALRLAEELGAEVVT-LPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA  124 (124)
T ss_pred             HHHHHHHHcCCEEEE-EeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence            666666667776543 456799999999999999999999999999999999999999999999 99999985

The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.

>PRK11175 universal stress protein UspE; Provisional

Probab=99.88  E-value=1.2e-21  Score=143.13  Aligned_cols=143  Identities=17%  Similarity=0.250  Sum_probs=105.0

Q ss_pred             CCcEEEEEecCChhh-------HHHHHHHHHHhccC-CCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhh
Q 031202            3 KARTVGVGMDNSPNS-------KAALRWAADNLIDS-GDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQ   74 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s-------~~al~~a~~la~~~-~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (164)
                      .+++||+++|+++.+       ..++++|..+|+.. +++++++|+.+.......      .+.+......+..      
T Consensus       151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~------~~~~~~~~~~~~~------  218 (305)
T PRK11175        151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIA------IELPEFDPSVYND------  218 (305)
T ss_pred             CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhcc------ccccccchhhHHH------
Confidence            368999999998653       67999999999998 999999999875432110      0000000011111      


Q ss_pred             hcCCCChhHHHHHHHHhhhcCceE-EEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccE
Q 031202           75 YGLTSNPEVLDILDTLSRTKGAKV-VAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPV  153 (164)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pV  153 (164)
                         ...++..+.+.++....++.. ...+..|++.++|.+++++.++||||||+++++++.++++||++++|+++++|||
T Consensus       219 ---~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pV  295 (305)
T PRK11175        219 ---AIRGQHLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDL  295 (305)
T ss_pred             ---HHHHHHHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCE
Confidence               011223344555555556654 3557789999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCC
Q 031202          154 TVVKGNP  160 (164)
Q Consensus       154 liv~~~~  160 (164)
                      |++|++.
T Consensus       296 Lvv~~~~  302 (305)
T PRK11175        296 LAIKPDG  302 (305)
T ss_pred             EEEcCCC
Confidence            9998644

>cd00293 USP_Like Usp: Universal stress protein family

Probab=99.87  E-value=5.1e-21  Score=122.55  Aligned_cols=130  Identities=37%  Similarity=0.560  Sum_probs=106.8

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|||++|+++.+..++++|..+|+..+++|+++|+.+......           .    ..      .+......++.++
T Consensus         1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~-----------~----~~------~~~~~~~~~~~l~   59 (130)
T cd00293           1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSA-----------A----EL------AELLEEEARALLE   59 (130)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcc-----------h----hH------HHHHHHHHHHHHH
Confidence            5899999999999999999999999999999999987764321           0    00      0001112345566


Q ss_pred             HHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           86 ILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      .+...+...++++...+..|++.++|.+++++.++|++|||+++++.+.+.++|+++.+++++++||||++
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv  130 (130)
T cd00293          60 ALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV  130 (130)
T ss_pred             HHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence            66666666789998888889889999999999999999999998888888999999999999999999985

The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.

>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]

Probab=99.86  E-value=4.8e-20  Score=121.61  Aligned_cols=148  Identities=29%  Similarity=0.382  Sum_probs=116.5

Q ss_pred             CCCcEEEEEec-CChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            2 SKARTVGVGMD-NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         2 ~~~~~ILv~~d-~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      +++++||+++| +++.+..+++.+..++...+..++++++.+.........       .......   ............
T Consensus         3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~-------~~~~~~~---~~~~~~~~~~~~   72 (154)
T COG0589           3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVS-------VALADAP---IPLSEEELEEEA   72 (154)
T ss_pred             cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccc-------cccccch---hhhhHHHHHHHH
Confidence            46899999999 999999999999999999999999999987775432100       0000000   001111112334


Q ss_pred             hhHHHHHHHHhhhcCce-EEEEEeeCCh-hhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           81 PEVLDILDTLSRTKGAK-VVAKVYWGDP-REKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~-~~~~v~~g~~-~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      ++..+.+.+.....+++ +...+..|++ .+.|..++.+.++|+||||+++++++.++++||++++++++++|||+++|.
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~  152 (154)
T COG0589          73 EELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRS  152 (154)
T ss_pred             HHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEcc
Confidence            67777778888888888 4888999988 799999999999999999999999999999999999999999999999987


Q ss_pred             C
Q 031202          159 N  159 (164)
Q Consensus       159 ~  159 (164)
                      .
T Consensus       153 ~  153 (154)
T COG0589         153 E  153 (154)
T ss_pred             C
Confidence            5

>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed

Probab=99.74  E-value=4.8e-17  Score=120.04  Aligned_cols=131  Identities=13%  Similarity=0.126  Sum_probs=90.1

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccC--CCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDS--GDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLT   78 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (164)
                      |+++++||||+|+|+.++.|+++|+++|+..  +++|+++||.+......        .     ....      .    .
T Consensus         2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~--------~-----~~~~------~----~   58 (357)
T PRK12652          2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP--------E-----GQDE------L----A   58 (357)
T ss_pred             CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc--------c-----hhHH------H----H
Confidence            6789999999999999999999999999984  69999999998643211        0     0000      0    1


Q ss_pred             CChhHHHHHHHHhhh------cCceEEEEEee--------CChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhH
Q 031202           79 SNPEVLDILDTLSRT------KGAKVVAKVYW--------GDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNH  144 (164)
Q Consensus        79 ~~~~~~~~~~~~~~~------~~~~~~~~v~~--------g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~  144 (164)
                      ..++.++.+.+.+..      .|+++++.+..        |++.++|+++|++.++|+||||..-..+...-++. -.+.
T Consensus        59 ~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~-~~~~  137 (357)
T PRK12652         59 AAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQ-PLER  137 (357)
T ss_pred             HHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccc-hHHH
Confidence            123344444444443      58998888765        89999999999999999999997633322222222 2344


Q ss_pred             HhcCCCccEEE
Q 031202          145 VVTNSSCPVTV  155 (164)
Q Consensus       145 v~~~~~~pVli  155 (164)
                      -+.++.|.+=.
T Consensus       138 ~~~~~~~~~~~  148 (357)
T PRK12652        138 ELARAGITYEE  148 (357)
T ss_pred             HHHhcCCceec
Confidence            44555554433

>PRK10490 sensor protein KdpD; Provisional

Probab=99.55  E-value=1.4e-13  Score=113.23  Aligned_cols=124  Identities=14%  Similarity=0.162  Sum_probs=99.9

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+||||+++++.++.++++|.++|...+++++++||..+.....               .            .+..+.+.
T Consensus       251 eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~---------------~------------~~~~~~l~  303 (895)
T PRK10490        251 DAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHRL---------------P------------EKKRRAIL  303 (895)
T ss_pred             CeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcC---------------C------------HHHHHHHH
Confidence            57999999999999999999999999999999999997643210               0            01112333


Q ss_pred             HHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCC-ccEEEEeCC
Q 031202           85 DILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSS-CPVTVVKGN  159 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~-~pVliv~~~  159 (164)
                      +.+ +.+++.|.++.. +..+++.++|+++|++++++.||||.+.+++|  ++.||+++++++.++ +.|.||+..
T Consensus       304 ~~~-~lA~~lGa~~~~-~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~  375 (895)
T PRK10490        304 SAL-RLAQELGAETAT-LSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALD  375 (895)
T ss_pred             HHH-HHHHHcCCEEEE-EeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCC
Confidence            344 477788988653 55569999999999999999999999887765  556899999999998 999999754

>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]

Probab=99.51  E-value=3.4e-13  Score=106.46  Aligned_cols=127  Identities=19%  Similarity=0.263  Sum_probs=111.4

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+||||+++++++...+++|.++|...+++++++||..+.....+                            +..+..+
T Consensus       249 e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~----------------------------~~~~~~l  300 (890)
T COG2205         249 ERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRLS----------------------------EKEARRL  300 (890)
T ss_pred             ceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEecccccccc----------------------------HHHHHHH
Confidence            589999999999999999999999999999999999988753210                            2345677


Q ss_pred             HHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCC-ccEEEEeCCC
Q 031202           85 DILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSS-CPVTVVKGNP  160 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~-~pVliv~~~~  160 (164)
                      +...+.+++.|-++.+ +..+++.++|.++|+.+++.-||||.+.+++|..++.|+.++++++..+ ..|.|++...
T Consensus       301 ~~~~~Lae~lGae~~~-l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~  376 (890)
T COG2205         301 HENLRLAEELGAEIVT-LYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDA  376 (890)
T ss_pred             HHHHHHHHHhCCeEEE-EeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCC
Confidence            7888888888999886 5567999999999999999999999999999988889999999999998 9999998644

>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF)

Probab=98.81  E-value=3.2e-08  Score=58.98  Aligned_cols=84  Identities=17%  Similarity=0.145  Sum_probs=71.8

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHH
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDI   86 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (164)
                      ||++++++.+|..++.++.+++ ..+..++++++.                                             
T Consensus         1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~---------------------------------------------   34 (86)
T cd01984           1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV---------------------------------------------   34 (86)
T ss_pred             CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence            6899999999999999999987 557777777765                                             


Q ss_pred             HHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeec-cchhHHhcCCCccEEE
Q 031202           87 LDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLG-SVSNHVVTNSSCPVTV  155 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~g-s~~~~v~~~~~~pVli  155 (164)
                                         ...+.+.+.+++.++|+|++|++.....+..+.| +++..+++.+++||+.
T Consensus        35 -------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~   85 (86)
T cd01984          35 -------------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT   85 (86)
T ss_pred             -------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence                               5567888889999999999999987777777777 8999999999999974

The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.

>PLN03159 cation/H(+) antiporter 15; Provisional

Probab=98.26  E-value=3.7e-05  Score=63.66  Aligned_cols=145  Identities=11%  Similarity=0.186  Sum_probs=92.0

Q ss_pred             cEEEEEecCChhhHHHHHHHHHH--hccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhh-hhhhcCCCCh
Q 031202            5 RTVGVGMDNSPNSKAALRWAADN--LIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINF-SKQYGLTSNP   81 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~l--a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~   81 (164)
                      -|||+|+...++....++.+...  .+.....++++|..+-.....+-          ....+...... .........+
T Consensus       459 lriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~----------l~~h~~~~~~~~~~~~~~~~~~  528 (832)
T PLN03159        459 LRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAM----------LIVHNTRKSGRPALNRTQAQSD  528 (832)
T ss_pred             eeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccc----------eeeeeccccccccccccccccc
Confidence            38999999888888777765443  22345699999998865432210          00000000000 0000112345


Q ss_pred             hHHHHHHHHhhhc-CceEEEEEe---eCChhhHHHHHHHhcCCCEEEEeecCCccccc------eeeccchhHHhcCCCc
Q 031202           82 EVLDILDTLSRTK-GAKVVAKVY---WGDPREKLCDAVEDLKLDTLVVGSRGLGALKR------VLLGSVSNHVVTNSSC  151 (164)
Q Consensus        82 ~~~~~~~~~~~~~-~~~~~~~v~---~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~------~~~gs~~~~v~~~~~~  151 (164)
                      ++...++.+.+.. ++.++....   ..+..++|++.|++.++++|+++.+.+....+      -.++.+.++|++++||
T Consensus       529 ~i~~af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApC  608 (832)
T PLN03159        529 HIINAFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPC  608 (832)
T ss_pred             HHHHHHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCC
Confidence            6777777666543 566664422   24889999999999999999999875433222      2456788999999999


Q ss_pred             cEEEEeCC
Q 031202          152 PVTVVKGN  159 (164)
Q Consensus       152 pVliv~~~  159 (164)
                      +|-|.=++
T Consensus       609 sVgIlVDR  616 (832)
T PLN03159        609 SVGILVDR  616 (832)
T ss_pred             CEEEEEeC
Confidence            99988543

>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain

Probab=97.81  E-value=0.00065  Score=46.40  Aligned_cols=93  Identities=11%  Similarity=0.028  Sum_probs=68.9

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|+|+++|..+|..++..+.+++...+.++.++|+...-..                                ...+..+
T Consensus         1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~--------------------------------~~~~~~~   48 (189)
T TIGR02432         1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRP--------------------------------ESDEEAE   48 (189)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCh--------------------------------hHHHHHH
Confidence            58999999999999999988887777888999998765321                                1134466


Q ss_pred             HHHHHhhhcCceEEEEEee-C--------Chh--------hHHHHHHHhcCCCEEEEeecCC
Q 031202           86 ILDTLSRTKGAKVVAKVYW-G--------DPR--------EKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~-g--------~~~--------~~I~~~a~~~~~dliv~g~~~~  130 (164)
                      .+.+.++..|+++...-.. .        +..        ..+.+.+++++++.|+.|++..
T Consensus        49 ~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~  110 (189)
T TIGR02432        49 FVQQFCKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHAD  110 (189)
T ss_pred             HHHHHHHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccH
Confidence            7777888888876654221 1        122        5778889999999999998743

The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).

>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]

Probab=97.72  E-value=0.0017  Score=44.15  Aligned_cols=92  Identities=14%  Similarity=0.161  Sum_probs=65.0

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|+|+++|..+|-.++..+..+....+.++.++||...-...                                .....+
T Consensus         1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~~--------------------------------s~~~~~   48 (182)
T PF01171_consen    1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLREE--------------------------------SDEEAE   48 (182)
T ss_dssp             EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSCC--------------------------------HHHHHH
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCcc--------------------------------cchhHH
Confidence            689999999999999999999999889999999999775321                                245567


Q ss_pred             HHHHHhhhcCceEEEEEee-----C-Ch--------hhHHHHHHHhcCCCEEEEeecC
Q 031202           86 ILDTLSRTKGAKVVAKVYW-----G-DP--------REKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~-----g-~~--------~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+.++|...|+++......     + +.        -+.+.+.|.+.+++.|++|++.
T Consensus        49 ~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~  106 (182)
T PF01171_consen   49 FVEEICEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHL  106 (182)
T ss_dssp             HHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BH
T ss_pred             HHHHHHHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcC
Confidence            8888999999887765322     1 11        1567788999999999999874

The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.

>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]

Probab=97.49  E-value=0.0036  Score=42.46  Aligned_cols=92  Identities=15%  Similarity=0.160  Sum_probs=68.2

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|+|+++|..+|..++..+..+....+.++.++|+......                                ...+..+
T Consensus         1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~~--------------------------------~~~~~~~   48 (185)
T cd01992           1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRP--------------------------------ESDEEAA   48 (185)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCc--------------------------------hHHHHHH
Confidence            58999999999999999998887766789999999755321                                1135667


Q ss_pred             HHHHHhhhcCceEEEEE-ee--CC-h----------hhHHHHHHHhcCCCEEEEeecC
Q 031202           86 ILDTLSRTKGAKVVAKV-YW--GD-P----------REKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v-~~--g~-~----------~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+.+.+...|+++.... ..  +. .          ...+.+.+++++++.|+.|++.
T Consensus        49 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~  106 (185)
T cd01992          49 FVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHA  106 (185)
T ss_pred             HHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCc
Confidence            77788888888777541 11  11 1          1557788999999999999874

This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.

>PLN03159 cation/H(+) antiporter 15; Provisional

Probab=97.47  E-value=0.0018  Score=53.88  Aligned_cols=41  Identities=20%  Similarity=0.255  Sum_probs=37.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      .++|.++.=|.++++.|+.+|.++|.+.+-+++++++....
T Consensus       630 ~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~  670 (832)
T PLN03159        630 SHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGE  670 (832)
T ss_pred             ceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEccc
Confidence            35899999999999999999999999999999999998654

>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily

Probab=97.03  E-value=0.023  Score=38.46  Aligned_cols=92  Identities=17%  Similarity=0.161  Sum_probs=63.2

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccC--CCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDS--GDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      +|+|+++|..+|-.++..+.++....  +.+++++|+.......                                ....
T Consensus         1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~~--------------------------------~~~~   48 (185)
T cd01993           1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGY--------------------------------RDES   48 (185)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCCC--------------------------------cHHH
Confidence            58999999999998888888876655  6788999988654211                                1233


Q ss_pred             HHHHHHHhhhcCceEEEEEee-------------C---------ChhhHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVYW-------------G---------DPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~-------------g---------~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+.+++.+...|+++...-..             +         .....+.+.+++++++.|+.|++.
T Consensus        49 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~  116 (185)
T cd01993          49 LEVVERLAEELGIELEIVSFKEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNL  116 (185)
T ss_pred             HHHHHHHHHHcCCceEEEehhhhcchhhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCCh
Confidence            455566666667765543211             0         112566778999999999999874

Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.

>PRK12342 hypothetical protein; Provisional

Probab=96.89  E-value=0.011  Score=42.48  Aligned_cols=104  Identities=19%  Similarity=0.077  Sum_probs=66.9

Q ss_pred             CChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhh
Q 031202           13 NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSR   92 (164)
Q Consensus        13 ~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (164)
                      -++++.+|++.|+++. ..+.+++++++-++...                                 ...++..+-....
T Consensus        33 iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a~---------------------------------~~~l~r~alamGa   78 (254)
T PRK12342         33 ISQFDLNAIEAASQLA-TDGDEIAALTVGGSLLQ---------------------------------NSKVRKDVLSRGP   78 (254)
T ss_pred             CChhhHHHHHHHHHHh-hcCCEEEEEEeCCChHh---------------------------------HHHHHHHHHHcCC
Confidence            4677899999999998 57899999999887521                                 1112222222333


Q ss_pred             hcCceEEEEEeeC-Ch---hhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           93 TKGAKVVAKVYWG-DP---REKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        93 ~~~~~~~~~v~~g-~~---~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                      +.++.+.-....| |+   +..|...++..++|||+.|....-..    -|.+.-.+......|.+
T Consensus        79 D~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~----tgqvg~~lA~~Lg~P~v  140 (254)
T PRK12342         79 HSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLY----AQQVGLLLGELLQLPVI  140 (254)
T ss_pred             CEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCC----CCCHHHHHHHHhCCCcE
Confidence            3445554333334 55   68888899988999999996543221    24555666666666544

>PRK03359 putative electron transfer flavoprotein FixA; Reviewed

Probab=96.70  E-value=0.02  Score=41.11  Aligned_cols=105  Identities=12%  Similarity=0.017  Sum_probs=66.6

Q ss_pred             CChhhHHHHHHHHHHhccCC-CeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHh
Q 031202           13 NSPNSKAALRWAADNLIDSG-DLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLS   91 (164)
Q Consensus        13 ~s~~s~~al~~a~~la~~~~-~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (164)
                      -++++.+|++.|+++....+ .+++++++-++...                                 ....+..+-...
T Consensus        34 iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a~---------------------------------~~~~lr~aLAmG   80 (256)
T PRK03359         34 ISQYDLNAIEAACQLKQQAAEAQVTALSVGGKALT---------------------------------NAKGRKDVLSRG   80 (256)
T ss_pred             cChhhHHHHHHHHHHhhhcCCCEEEEEEECCcchh---------------------------------hHHHHHHHHHcC
Confidence            46778999999999988765 89999999887521                                 112333333333


Q ss_pred             hhcCceEEEEEeeC-C---hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           92 RTKGAKVVAKVYWG-D---PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        92 ~~~~~~~~~~v~~g-~---~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                      .+.++.+.-....| |   .+..|...++..++|||+.|.....+.    .|.+.-.+......|.+
T Consensus        81 aD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~----tgqvg~~lAe~Lg~P~v  143 (256)
T PRK03359         81 PDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLY----AQQVGLLVGEILNIPAI  143 (256)
T ss_pred             CCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCC----CCcHHHHHHHHhCCCce
Confidence            33444444332233 3   367888888888999999996543321    24455556666655543

>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]

Probab=96.67  E-value=0.052  Score=39.73  Aligned_cols=93  Identities=16%  Similarity=0.169  Sum_probs=64.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+|+|+++|..+|-.++..+..+...  .++.++||...-...                                .....
T Consensus        22 ~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~~~--------------------------------~~~~~   67 (298)
T COG0037          22 YKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLRGY--------------------------------SDQEA   67 (298)
T ss_pred             CeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCCCc--------------------------------cchHH
Confidence            58999999999999888887777655  899999998776421                                24555


Q ss_pred             HHHHHHhhhcCceEEEE-Ee--eC-C------h--------hhHHHHHHHhcCCCEEEEeecCCc
Q 031202           85 DILDTLSRTKGAKVVAK-VY--WG-D------P--------REKLCDAVEDLKLDTLVVGSRGLG  131 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~-v~--~g-~------~--------~~~I~~~a~~~~~dliv~g~~~~~  131 (164)
                      +.....+...++..... +.  .+ .      +        -..+.+.+++.++|.|+.|++...
T Consensus        68 ~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD  132 (298)
T COG0037          68 ELVEKLCEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDD  132 (298)
T ss_pred             HHHHHHHHHhCCceEEEEEEeeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHH
Confidence            56666777666532221 11  11 1      1        245777899999999999987543

>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems

Probab=96.31  E-value=0.13  Score=34.30  Aligned_cols=88  Identities=19%  Similarity=0.175  Sum_probs=59.8

Q ss_pred             EEEEEecCC-----hhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            6 TVGVGMDNS-----PNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         6 ~ILv~~d~s-----~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      +|||..+-.     +.+..++..|.+++...+.+++++.+-+..                                    
T Consensus         1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~------------------------------------   44 (164)
T PF01012_consen    1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAE------------------------------------   44 (164)
T ss_dssp             EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCC------------------------------------
T ss_pred             CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecch------------------------------------
Confidence            466766643     788999999999999999999999988322                                    


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeC--------ChhhHHHHHHHhcCCCEEEEeecCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWG--------DPREKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g--------~~~~~I~~~a~~~~~dliv~g~~~~  130 (164)
                       ...+.+++.+...|..--..+...        ...+.|.+.+++.++|+|++|+...
T Consensus        45 -~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~~  101 (164)
T PF01012_consen   45 -EAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTSF  101 (164)
T ss_dssp             -CHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSHH
T ss_pred             -hhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcCC
Confidence             334444555555565433222111        2467889999999999999997543

They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....

>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]

Probab=96.14  E-value=0.061  Score=38.71  Aligned_cols=105  Identities=17%  Similarity=0.235  Sum_probs=68.1

Q ss_pred             cCChhhHHHHHHHHHHhc-cCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHH
Q 031202           12 DNSPNSKAALRWAADNLI-DSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTL   90 (164)
Q Consensus        12 d~s~~s~~al~~a~~la~-~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (164)
                      .-++.+..|++.|++|.. ..+.+++++++-++..                                   +..+..+-..
T Consensus        34 ~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~a-----------------------------------~~~lr~aLAm   78 (260)
T COG2086          34 SINPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQA-----------------------------------EEALREALAM   78 (260)
T ss_pred             ccChhhHHHHHHHHHhhccCCCceEEEEEecchhh-----------------------------------HHHHHHHHhc
Confidence            345778999999999999 6899999999987752                                   3333332223


Q ss_pred             hhhcCceEEEEEeeC----ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEE
Q 031202           91 SRTKGAKVVAKVYWG----DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTV  155 (164)
Q Consensus        91 ~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVli  155 (164)
                      ..+..+-++-+...+    ..+..|...++..+.|||+.|...-.+    --|.+...+......|.+-
T Consensus        79 GaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~----~t~qvg~~lAe~Lg~P~~t  143 (260)
T COG2086          79 GADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAIDG----DTGQVGPLLAELLGWPQVT  143 (260)
T ss_pred             CCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccccC----CccchHHHHHHHhCCceee
Confidence            223344444322233    346888889999999999999653322    1345555566666665543

>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional

Probab=96.08  E-value=0.22  Score=35.85  Aligned_cols=90  Identities=12%  Similarity=0.110  Sum_probs=60.5

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccC--CCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDS--GDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      .+|+|+++|..+|-.++..+..+....  +-++..+|+......                                ...+
T Consensus        30 ~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~--------------------------------~~~~   77 (258)
T PRK10696         30 DRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPG--------------------------------FPEH   77 (258)
T ss_pred             CEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCC--------------------------------CCHH
Confidence            589999999999998888887776543  347888887643210                                0011


Q ss_pred             HHHHHHHHhhhcCceEEEEEee-----------CC---------hhhHHHHHHHhcCCCEEEEeecC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYW-----------GD---------PREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~-----------g~---------~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                         .+.+.|...|+++...-..           +.         --..+.+.+++.++|.|++|++.
T Consensus        78 ---~~~~~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~  141 (258)
T PRK10696         78 ---VLPEYLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHR  141 (258)
T ss_pred             ---HHHHHHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCch
Confidence               3466777788876643111           10         11456678999999999999874

>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional

Probab=95.87  E-value=0.2  Score=38.98  Aligned_cols=66  Identities=14%  Similarity=0.127  Sum_probs=50.2

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHh-ccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNL-IDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la-~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      -.+|+|+++|..+|-.++..+..+. ...+.+++++||...-..                                ...+
T Consensus        15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr~--------------------------------~s~~   62 (436)
T PRK10660         15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLSP--------------------------------NADS   62 (436)
T ss_pred             CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCCc--------------------------------chHH
Confidence            3689999999999988888777765 235789999999866531                                1345


Q ss_pred             HHHHHHHHhhhcCceEEEE
Q 031202           83 VLDILDTLSRTKGAKVVAK  101 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~  101 (164)
                      ..+.+++.|...|+++...
T Consensus        63 ~~~~~~~~~~~l~i~~~~~   81 (436)
T PRK10660         63 WVKHCEQVCQQWQVPLVVE   81 (436)
T ss_pred             HHHHHHHHHHHcCCcEEEE
Confidence            5677888999999887754

>PRK05253 sulfate adenylyltransferase subunit 2; Provisional

Probab=95.65  E-value=0.27  Score=36.31  Aligned_cols=92  Identities=20%  Similarity=0.220  Sum_probs=63.4

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      +.+++++++|..+|..++..+.......+.++.++|+......                                  .+.
T Consensus        27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDTG~~F----------------------------------pEt   72 (301)
T PRK05253         27 FENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKF----------------------------------PEM   72 (301)
T ss_pred             CCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeCCCCC----------------------------------HHH
Confidence            5689999999999998888887765444567899999866532                                  234


Q ss_pred             HHHHHHHhhhcCceEEEEEe-----eC-C-------------hhhHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVY-----WG-D-------------PREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~-----~g-~-------------~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+...+.+...|+++.....     .| .             -...+.+.++++++|.++.|.+.
T Consensus        73 ~ef~d~~a~~~gl~l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~Rr  137 (301)
T PRK05253         73 IEFRDRRAKELGLELIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARR  137 (301)
T ss_pred             HHHHHHHHHHhCCCEEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEecccc
Confidence            44455566666776654311     11 0             02567788889999999999764

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=95.14  E-value=0.44  Score=32.85  Aligned_cols=91  Identities=16%  Similarity=0.176  Sum_probs=62.4

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHH
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDI   86 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (164)
                      ++|.-.|..-.-.+...|.++... +.++.++....-+                                    -.+.++
T Consensus         5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R------------------------------------~ga~eQ   47 (196)
T PF00448_consen    5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYR------------------------------------IGAVEQ   47 (196)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSS------------------------------------THHHHH
T ss_pred             EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCC------------------------------------ccHHHH
Confidence            455556666566778888888777 8888888875443                                    467888


Q ss_pred             HHHHhhhcCceEEEEEeeCChhhHH---HHHHHhcCCCEEEEeecCCcccc
Q 031202           87 LDTLSRTKGAKVVAKVYWGDPREKL---CDAVEDLKLDTLVVGSRGLGALK  134 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g~~~~~I---~~~a~~~~~dliv~g~~~~~~~~  134 (164)
                      ++.+++..|+++...-...++.+.+   ++..+..++|+|++-+.|++...
T Consensus        48 L~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d   98 (196)
T PF00448_consen   48 LKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRD   98 (196)
T ss_dssp             HHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTH
T ss_pred             HHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhh
Confidence            8999999999877522233555544   45556677899999998887654

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated

Probab=95.07  E-value=0.062  Score=36.63  Aligned_cols=35  Identities=9%  Similarity=0.079  Sum_probs=27.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      +++|++++.|+..+.++.++.-.|.+ .+.+++++-
T Consensus         1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~   35 (182)
T PRK07313          1 MKNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLM   35 (182)
T ss_pred             CCEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence            47999999999999998888777754 577766543

>TIGR00268 conserved hypothetical protein TIGR00268

Probab=94.87  E-value=0.74  Score=33.05  Aligned_cols=37  Identities=19%  Similarity=0.267  Sum_probs=29.1

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      ..++++|+++|.-+|-.++..+.+.    +.++..+++..+
T Consensus        11 ~~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~~   47 (252)
T TIGR00268        11 EFKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVSP   47 (252)
T ss_pred             hcCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecCC
Confidence            3578999999999998877776653    667888888653

The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.

>cd01995 ExsB ExsB is a transcription regulator related protein

Probab=94.83  E-value=0.73  Score=30.74  Aligned_cols=87  Identities=11%  Similarity=0.092  Sum_probs=51.7

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +++|.++|..+|-.++..+.+    .+.++..+++.......                                  .-.+
T Consensus         1 kvlv~~SGG~DS~~~~~~~~~----~~~~v~~~~~~~~~~~~----------------------------------~~~~   42 (169)
T cd01995           1 KAVVLLSGGLDSTTCLAWAKK----EGYEVHALSFDYGQRHA----------------------------------KEEE   42 (169)
T ss_pred             CEEEEecCcHHHHHHHHHHHH----cCCcEEEEEEECCCCCh----------------------------------hHHH
Confidence            588999999999877766654    34578888887542100                                  0112


Q ss_pred             HHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCC
Q 031202           86 ILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~  130 (164)
                      .+...+...|.......+.......+.+.+.+.+++.|++|.+..
T Consensus        43 ~~~~~~~~~g~~~~~~~~~~~~~~~l~~~a~~~g~~~i~~G~~~~   87 (169)
T cd01995          43 AAKLIAEKLGPSTYVPARNLIFLSIAAAYAEALGAEAIIIGVNAE   87 (169)
T ss_pred             HHHHHHHHHCCCEEEeCcCHHHHHHHHHHHHHCCCCEEEEeeccC
Confidence            333333333422221111112335567788999999999998753

It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown

>TIGR00591 phr2 photolyase PhrII

Probab=94.82  E-value=0.19  Score=39.28  Aligned_cols=86  Identities=13%  Similarity=-0.108  Sum_probs=62.8

Q ss_pred             hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCc
Q 031202           17 SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGA   96 (164)
Q Consensus        17 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (164)
                      +-.||..|++.|...+.+|..+++.++.....                        .........+.+..+.+.+++.|.
T Consensus        37 DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~------------------------~~~r~~Fl~esL~~L~~~L~~~g~   92 (454)
T TIGR00591        37 DNWALIAAQTLALKKKLPLHVCFCLVDFFLAA------------------------TRRHYFFMLGGLDEVANECERLII   92 (454)
T ss_pred             CCHHHHHHHHHHHHcCCCEEEEEEeCCCcccc------------------------cHHHHHHHHHHHHHHHHHHHHcCC
Confidence            34578888887766677899999997753210                        001112345667777788888888


Q ss_pred             eEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           97 KVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        97 ~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      .+.  +..|++.+.|.+.+++.+++.|+....
T Consensus        93 ~L~--v~~g~~~~~l~~l~~~~~i~~V~~~~~  122 (454)
T TIGR00591        93 PFH--LLDGPPKELLPYFVDLHAAAAVVTDFS  122 (454)
T ss_pred             ceE--EeecChHHHHHHHHHHcCCCEEEEecc
Confidence            776  668999999999999999999999764

All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK13820 argininosuccinate synthase; Provisional

Probab=94.77  E-value=1.1  Score=34.45  Aligned_cols=37  Identities=11%  Similarity=0.165  Sum_probs=29.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCC-eEEEEEEeCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGD-LIILIHVQPP   43 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~-~l~ll~v~~~   43 (164)
                      +++|+|+++|.-+|-.++.++.+   .++. +++.+|+...
T Consensus         2 ~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~g   39 (394)
T PRK13820          2 MKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDVG   39 (394)
T ss_pred             CCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEECC
Confidence            57999999999999888877543   3564 8999999754

>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases

Probab=94.35  E-value=0.73  Score=31.17  Aligned_cols=37  Identities=19%  Similarity=0.169  Sum_probs=25.6

Q ss_pred             EEEEEec---------CChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            6 TVGVGMD---------NSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         6 ~ILv~~d---------~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      +|||.++         ..+.+..++..|.+++. .+..++++.+-..
T Consensus         1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~~~~v~~v~~G~~   46 (181)
T cd01985           1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-YGGEVTALVIGPP   46 (181)
T ss_pred             CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-cCCeEEEEEECCh
Confidence            3666665         45667788888888876 5567777776543

ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.

>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional

Probab=94.27  E-value=1.8  Score=32.90  Aligned_cols=92  Identities=16%  Similarity=0.137  Sum_probs=58.0

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      .-.+|+|+++|.-+|..++..+.+    .+.+++.+|+.......                                ..+
T Consensus         4 ~~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~~~~~~--------------------------------~~~   47 (360)
T PRK14665          4 KNKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRFYEFNG--------------------------------STE   47 (360)
T ss_pred             CCCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEecCCCCC--------------------------------ChH
Confidence            446999999999999776655443    47788888887432100                                122


Q ss_pred             HHHHHHHHhhhcCceEEEEEe-----------------eC----------C-h-hhHHHHHHHhcCCCEEEEeecCC
Q 031202           83 VLDILDTLSRTKGAKVVAKVY-----------------WG----------D-P-REKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~-----------------~g----------~-~-~~~I~~~a~~~~~dliv~g~~~~  130 (164)
                      ..+.+++.|+..|+++...-.                 .|          . . ...+.++|++.++|.|+.|++-+
T Consensus        48 d~~~a~~va~~LgIp~~vvd~~~~f~~~v~~~f~~~y~~g~tpnpC~~Cnr~ikf~~l~~~A~~~G~~~IATGHya~  124 (360)
T PRK14665         48 YLEDARALAERLGIGHITYDARKVFRKQIIDYFIDEYMSGHTPVPCTLCNNYLKWPLLAKIADEMGIFYLATGHYVR  124 (360)
T ss_pred             HHHHHHHHHHHhCCCEEEEecHHHHHHHHHhhhhhHHhccCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEECCccc
Confidence            344555566666665443211                 01          1 1 24667889999999999997753

>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]

Probab=94.19  E-value=0.48  Score=32.87  Aligned_cols=69  Identities=20%  Similarity=0.311  Sum_probs=49.9

Q ss_pred             HHHHhhhcCceEEEEEeeC---Ch---hhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           87 LDTLSRTKGAKVVAKVYWG---DP---REKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g---~~---~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      +.+++.+.++.+.+ +..|   +|   ...+.+..++.++|++|+++.+....    ..+.+..++..++.|.+|+.+.+
T Consensus        23 lDErAdRedi~vrV-vgsgaKM~Pe~veaav~~~~e~~~pDfvi~isPNpaaP----GP~kARE~l~~s~~PaiiigDaP   97 (277)
T COG1927          23 LDERADREDIEVRV-VGSGAKMDPECVEAAVTEMLEEFNPDFVIYISPNPAAP----GPKKAREILSDSDVPAIIIGDAP   97 (277)
T ss_pred             HHhhcccCCceEEE-eccccccChHHHHHHHHHHHHhcCCCEEEEeCCCCCCC----CchHHHHHHhhcCCCEEEecCCc
Confidence            34556667787775 3333   33   35667778999999999987754322    35678999999999999998765

>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily

Probab=93.96  E-value=1.4  Score=30.38  Aligned_cols=86  Identities=22%  Similarity=0.256  Sum_probs=55.3

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHH
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDI   86 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (164)
                      |+|+++|..+|..++..+...   .+.++..+|+.....                                  .....+.
T Consensus         1 vvva~SGG~DS~~ll~ll~~~---~~~~v~~v~vd~g~~----------------------------------~~~~~~~   43 (202)
T cd01990           1 VAVAFSGGVDSTLLLKAAVDA---LGDRVLAVTATSPLF----------------------------------PRRELEE   43 (202)
T ss_pred             CEEEccCCHHHHHHHHHHHHH---hCCcEEEEEeCCCCC----------------------------------CHHHHHH
Confidence            588999999998777766554   223788888875531                                  1234455


Q ss_pred             HHHHhhhcCceEEEEEee-------------------CChhhHHHHHHHhcCCCEEEEeecC
Q 031202           87 LDTLSRTKGAKVVAKVYW-------------------GDPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~-------------------g~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      +++.+...|++....-..                   .-....+.+.+++.+++.|+.|++.
T Consensus        44 ~~~~a~~lgi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~  105 (202)
T cd01990          44 AKRLAKEIGIRHEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNA  105 (202)
T ss_pred             HHHHHHHcCCcEEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence            556666666655433111                   0123466778999999999999764

Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.

>TIGR02039 CysD sulfate adenylyltransferase, small subunit

Probab=93.95  E-value=1.5  Score=32.32  Aligned_cols=91  Identities=19%  Similarity=0.199  Sum_probs=61.3

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      +.+.++++++.++|-.++..+.......+.++.++|+...-.+                                  .+.
T Consensus        19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDTG~~F----------------------------------~Et   64 (294)
T TIGR02039        19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTGWKF----------------------------------REM   64 (294)
T ss_pred             cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEecCCCC----------------------------------HHH
Confidence            4567788999999998888887765544668999999876542                                  234


Q ss_pred             HHHHHHHhhhcCceEEEEEe-----eC-Ch-------------hhHHHHHHHhcCCCEEEEeec
Q 031202           84 LDILDTLSRTKGAKVVAKVY-----WG-DP-------------REKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~-----~g-~~-------------~~~I~~~a~~~~~dliv~g~~  128 (164)
                      .+...+.++..|+++.+...     .| ++             .+.+.+.++++++|.++.|.+
T Consensus        65 ~efrd~~a~~~gl~l~v~~~~~~~~~g~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~R  128 (294)
T TIGR02039        65 IAFRDHMVAKYGLRLIVHSNEEGIADGINPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGAR  128 (294)
T ss_pred             HHHHHHHHHHhCCCEEEEechhhhhcCccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCC
Confidence            44444555556666554311     11 01             145777788899999999965

In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.

>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]

Probab=93.78  E-value=0.68  Score=30.46  Aligned_cols=70  Identities=14%  Similarity=0.197  Sum_probs=49.9

Q ss_pred             HHHHHHHHhhhcCceEEEEEeeC----ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWG----DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      ..+...+.+.+.|+.++.+|.+-    +...+..+.+++.++..||-|..+...+.+        -+.-.++.||+=||-
T Consensus        17 ~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPG--------mvAa~T~lPViGVPv   88 (162)
T COG0041          17 TMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPG--------MVAAKTPLPVIGVPV   88 (162)
T ss_pred             HHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcch--------hhhhcCCCCeEeccC
Confidence            34455566677799999998764    234556666788888889998877655433        256678899999987


Q ss_pred             CC
Q 031202          159 NP  160 (164)
Q Consensus       159 ~~  160 (164)
                      .+
T Consensus        89 ~s   90 (162)
T COG0041          89 QS   90 (162)
T ss_pred             cc
Confidence            64

>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase

Probab=93.77  E-value=1.2  Score=29.21  Aligned_cols=38  Identities=18%  Similarity=0.191  Sum_probs=28.2

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      +|+|+++|..+|..++..+.+..... .++.++++....
T Consensus         1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dtg~   38 (173)
T cd01713           1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDTGY   38 (173)
T ss_pred             CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCCCC
Confidence            47899999999988888776654432 477888886654

PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti

>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal

Probab=93.44  E-value=0.3  Score=33.16  Aligned_cols=34  Identities=9%  Similarity=0.063  Sum_probs=25.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      ++|+|++.|+..+.++.+..-.|. ..+.+++++-
T Consensus         1 k~I~lgvtGs~~a~~~~~ll~~L~-~~g~~V~vi~   34 (177)
T TIGR02113         1 KKILLAVTGSIAAYKAADLTSQLT-KLGYDVTVLM   34 (177)
T ss_pred             CEEEEEEcCHHHHHHHHHHHHHHH-HCCCEEEEEE
Confidence            589999999999988887666654 4577766543

In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.

>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit

Probab=93.29  E-value=0.31  Score=33.40  Aligned_cols=34  Identities=21%  Similarity=0.309  Sum_probs=25.7

Q ss_pred             cEEEEEecCChhhHHHH-HHHHHHhccCCCeEEEEE
Q 031202            5 RTVGVGMDNSPNSKAAL-RWAADNLIDSGDLIILIH   39 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al-~~a~~la~~~~~~l~ll~   39 (164)
                      ++|++++.|+..+.++. +..-.| ...|.+++++-
T Consensus         1 ~~I~lgITGs~~a~~a~~~ll~~L-~~~g~~V~vI~   35 (187)
T TIGR02852         1 KRIGFGLTGSHCTLEAVMPQLEKL-VDEGAEVTPIV   35 (187)
T ss_pred             CEEEEEEecHHHHHHHHHHHHHHH-HhCcCEEEEEE
Confidence            58999999999999886 655555 45577766554

Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.

>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]

Probab=93.27  E-value=0.71  Score=38.64  Aligned_cols=42  Identities=17%  Similarity=0.115  Sum_probs=37.1

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNAD   46 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~   46 (164)
                      .+|.+..=+.++++.|+.++.+++.+.+..++++........
T Consensus       615 ~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~~  656 (769)
T KOG1650|consen  615 YKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDESK  656 (769)
T ss_pred             eEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccchh
Confidence            367778888899999999999999999999999999987753

>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein

Probab=93.16  E-value=0.94  Score=30.02  Aligned_cols=71  Identities=13%  Similarity=0.146  Sum_probs=48.5

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-Ch---hhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DP---REKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~---~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++.+.++..|++++.+|..- ..   ...+.+.+++.+++.+|.+......        .+.-+.-.++.||+=||
T Consensus        12 ~~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~--------Lpgvva~~t~~PVIgvP   83 (156)
T TIGR01162        12 PTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAH--------LPGMVAALTPLPVIGVP   83 (156)
T ss_pred             HHHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccch--------hHHHHHhccCCCEEEec
Confidence            445566667778899999887664 33   3455555566778877777654433        35557778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        84 ~~~   86 (156)
T TIGR01162        84 VPS   86 (156)
T ss_pred             CCc
Confidence            754

Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.

>PRK10867 signal recognition particle protein; Provisional

Probab=93.00  E-value=2.5  Score=32.96  Aligned_cols=91  Identities=18%  Similarity=0.218  Sum_probs=56.4

Q ss_pred             EEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHH
Q 031202            8 GVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDIL   87 (164)
Q Consensus         8 Lv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (164)
                      ++...|+.-+-.+...|..+++..+.++.++....-+                                    ..+.+++
T Consensus       105 ~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R------------------------------------~aa~eQL  148 (433)
T PRK10867        105 MVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYR------------------------------------PAAIEQL  148 (433)
T ss_pred             EECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccc------------------------------------hHHHHHH
Confidence            3344555556667777777766557777777665433                                    2344556


Q ss_pred             HHHhhhcCceEEEEEeeCChh---hHHHHHHHhcCCCEEEEeecCCcccc
Q 031202           88 DTLSRTKGAKVVAKVYWGDPR---EKLCDAVEDLKLDTLVVGSRGLGALK  134 (164)
Q Consensus        88 ~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliv~g~~~~~~~~  134 (164)
                      ..++...++++.......+|.   ...++.++..++|+|++-+.|+....
T Consensus       149 ~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d  198 (433)
T PRK10867        149 KTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHID  198 (433)
T ss_pred             HHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccC
Confidence            666677787765432223543   33445667778999999888876543

>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated

Probab=92.66  E-value=0.47  Score=36.52  Aligned_cols=38  Identities=13%  Similarity=0.177  Sum_probs=28.9

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      |+..++|++++.|+..+..+.++.-.|- ..+.++.++-
T Consensus         3 ~l~~k~IllgvTGsiaa~k~~~lv~~L~-~~g~~V~vv~   40 (399)
T PRK05579          3 MLAGKRIVLGVSGGIAAYKALELVRRLR-KAGADVRVVM   40 (399)
T ss_pred             CCCCCeEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEE
Confidence            3456899999999999988888877764 4677766554

>PF00875 DNA_photolyase: DNA photolyase from Prosite

Probab=92.03  E-value=0.37  Score=32.08  Aligned_cols=111  Identities=19%  Similarity=0.193  Sum_probs=65.0

Q ss_pred             HHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCceE
Q 031202           19 AALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKV   98 (164)
Q Consensus        19 ~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (164)
                      .||..|    ...+.++..+++.++.....          ......           ......+.+..+++.++..|+..
T Consensus        15 ~aL~~A----~~~~~~v~~vfv~d~~~~~~----------~~~~~~-----------r~~Fl~~sL~~L~~~L~~~g~~L   69 (165)
T PF00875_consen   15 PALHAA----AQNGDPVLPVFVFDPEEFHP----------YRIGPR-----------RRRFLLESLADLQESLRKLGIPL   69 (165)
T ss_dssp             HHHHHH----HHTTSEEEEEEEE-HHGGTT----------CSSCHH-----------HHHHHHHHHHHHHHHHHHTTS-E
T ss_pred             HHHHHH----HHcCCCeEEEEEeccccccc----------ccCcch-----------HHHHHHHHHHHHHHHHHhcCcce
Confidence            455555    44678899999998872110          000001           11234566777777777778776


Q ss_pred             EEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           99 VAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        99 ~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .  +..|++.+.|.+.+++.+++.|+.... .+.... -.-....+.+...++++..+..
T Consensus        70 ~--v~~g~~~~~l~~l~~~~~~~~V~~~~~-~~~~~~-~rd~~v~~~l~~~~i~~~~~~~  125 (165)
T PF00875_consen   70 L--VLRGDPEEVLPELAKEYGATAVYFNEE-YTPYER-RRDERVRKALKKHGIKVHTFDD  125 (165)
T ss_dssp             E--EEESSHHHHHHHHHHHHTESEEEEE----SHHHH-HHHHHHHHHHHHTTSEEEEE--
T ss_pred             E--EEecchHHHHHHHHHhcCcCeeEeccc-cCHHHH-HHHHHHHHHHHhcceEEEEECC
Confidence            6  779999999999999999999998754 332221 1122344455555677766654

; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....

>PRK00779 ornithine carbamoyltransferase; Provisional

Probab=92.00  E-value=2.4  Score=31.41  Aligned_cols=42  Identities=17%  Similarity=0.287  Sum_probs=28.3

Q ss_pred             CChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202          105 GDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus       105 g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      |+-.....+....+ +|+||+.+....         ..+.+.+++++||+=-
T Consensus        85 gEsl~Dt~~~l~~~-~D~iv~R~~~~~---------~~~~~a~~~~vPVINa  126 (304)
T PRK00779         85 GEPIEDTARVLSRY-VDAIMIRTFEHE---------TLEELAEYSTVPVING  126 (304)
T ss_pred             CcCHHHHHHHHHHh-CCEEEEcCCChh---------HHHHHHHhCCCCEEeC
Confidence            54455556666666 899999765332         4667788899998743

>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]

Probab=92.00  E-value=2.9  Score=28.84  Aligned_cols=82  Identities=13%  Similarity=0.068  Sum_probs=55.0

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+|.|-++++.....++-.|+. ....++++.++....+.                                    ...+
T Consensus         1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~~------------------------------------A~~l   43 (200)
T COG0299           1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKAD------------------------------------AYAL   43 (200)
T ss_pred             CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCCC------------------------------------CHHH
Confidence            3788888988888778877877 44456666665554432                                    1222


Q ss_pred             HHHHHHhhhcCceEEEEEeeC-----ChhhHHHHHHHhcCCCEEEEee
Q 031202           85 DILDTLSRTKGAKVVAKVYWG-----DPREKLCDAVEDLKLDTLVVGS  127 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g-----~~~~~I~~~a~~~~~dliv~g~  127 (164)
                          ++++.+|++....-+.+     ....+|.+..++.++|+||+..
T Consensus        44 ----erA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAG   87 (200)
T COG0299          44 ----ERAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAG   87 (200)
T ss_pred             ----HHHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcc
Confidence                34455687765432222     2678999999999999999964

>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed

Probab=91.77  E-value=0.55  Score=32.42  Aligned_cols=37  Identities=19%  Similarity=0.262  Sum_probs=27.6

Q ss_pred             CCCcEEEEEecCChhhHH-HHHHHHHHhccCCCeEEEEE
Q 031202            2 SKARTVGVGMDNSPNSKA-ALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~-al~~a~~la~~~~~~l~ll~   39 (164)
                      +.-++|++++.|+..+.+ +.+.+-.|. ..|.+++++-
T Consensus         3 l~~k~IllgVTGsiaa~k~a~~lir~L~-k~G~~V~vv~   40 (196)
T PRK08305          3 LKGKRIGFGLTGSHCTYDEVMPEIEKLV-DEGAEVTPIV   40 (196)
T ss_pred             CCCCEEEEEEcCHHHHHHHHHHHHHHHH-hCcCEEEEEE
Confidence            345799999999999998 588776664 4577766554

>PRK12563 sulfate adenylyltransferase subunit 2; Provisional

Probab=91.76  E-value=3.9  Score=30.48  Aligned_cols=43  Identities=14%  Similarity=0.013  Sum_probs=34.2

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNAD   46 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~   46 (164)
                      +.++.++.++.++|..++..+.......+.++-+||+.....+
T Consensus        37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDTG~~F   79 (312)
T PRK12563         37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDTTWKF   79 (312)
T ss_pred             cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCCCCCC
Confidence            4578899999999999998888776555668899999776543

>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3

Probab=91.34  E-value=0.69  Score=34.38  Aligned_cols=55  Identities=13%  Similarity=0.166  Sum_probs=32.8

Q ss_pred             EeeC-ChhhHHHHHHHhc-------CCCEEEEeecCCccccceee-ccchhHHhcCCCccEEEE
Q 031202          102 VYWG-DPREKLCDAVEDL-------KLDTLVVGSRGLGALKRVLL-GSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus       102 v~~g-~~~~~I~~~a~~~-------~~dliv~g~~~~~~~~~~~~-gs~~~~v~~~~~~pVliv  156 (164)
                      .+.| +....|++..+..       ++|+|||++.|.+...-+.| .-..-.-+..+++||+.-
T Consensus        50 ~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~eDL~~FN~e~varai~~~~~Pvisa  113 (319)
T PF02601_consen   50 SVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSIEDLWAFNDEEVARAIAASPIPVISA  113 (319)
T ss_pred             cccccchHHHHHHHHHHHHhccccccccEEEEecCCCChHHhcccChHHHHHHHHhCCCCEEEe
Confidence            3456 5666676665543       48999999765443221222 223444566788998763

1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity

>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE

Probab=91.19  E-value=1.2  Score=29.45  Aligned_cols=72  Identities=15%  Similarity=0.106  Sum_probs=44.1

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHh---cCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVED---LKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~---~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      ....+++.+.+++.|+.++.++..- .-.+.+.+++++   .+++.+|.+.-..+.        .+.-+.-.++.||+=|
T Consensus        13 ~~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~--------Lpgvva~~t~~PVIgv   84 (150)
T PF00731_consen   13 LPIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAA--------LPGVVASLTTLPVIGV   84 (150)
T ss_dssp             HHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS----------HHHHHHHHSSS-EEEE
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCccc--------chhhheeccCCCEEEe
Confidence            3556677777888899999887765 344555555554   456877776554333        3445667779999999


Q ss_pred             eCCC
Q 031202          157 KGNP  160 (164)
Q Consensus       157 ~~~~  160 (164)
                      |...
T Consensus        85 P~~~   88 (150)
T PF00731_consen   85 PVSS   88 (150)
T ss_dssp             EE-S
T ss_pred             ecCc
Confidence            8544

PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....

>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI

Probab=91.13  E-value=5.6  Score=30.41  Aligned_cols=37  Identities=14%  Similarity=0.051  Sum_probs=28.7

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      -.++|+.++|.-+|..++-++..    .|.+++.+|+....
T Consensus       172 ~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~~~  208 (371)
T TIGR00342       172 QGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFNEP  208 (371)
T ss_pred             CCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeCCC
Confidence            36899999999999876655533    47899999998543

The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.

>TIGR00959 ffh signal recognition particle protein

Probab=91.09  E-value=5.8  Score=31.01  Aligned_cols=90  Identities=17%  Similarity=0.201  Sum_probs=55.2

Q ss_pred             EEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHH
Q 031202            8 GVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDIL   87 (164)
Q Consensus         8 Lv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (164)
                      ++...|+.-+-.+...|..+....+.++.++....-+.                                    .+.+.+
T Consensus       104 ~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~------------------------------------~a~~QL  147 (428)
T TIGR00959       104 MVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRP------------------------------------AAIEQL  147 (428)
T ss_pred             EECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccch------------------------------------HHHHHH
Confidence            44445555566777777776655677777776654331                                    234456


Q ss_pred             HHHhhhcCceEEEEEeeCChh---hHHHHHHHhcCCCEEEEeecCCccc
Q 031202           88 DTLSRTKGAKVVAKVYWGDPR---EKLCDAVEDLKLDTLVVGSRGLGAL  133 (164)
Q Consensus        88 ~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliv~g~~~~~~~  133 (164)
                      ..++...++++.......+|.   ...++.+...++|+|++-+.|+...
T Consensus       148 ~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~  196 (428)
T TIGR00959       148 KVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQI  196 (428)
T ss_pred             HHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCcccc
Confidence            666666677765432223553   3345556677889999988887654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional

Probab=90.71  E-value=2.3  Score=30.21  Aligned_cols=71  Identities=21%  Similarity=0.212  Sum_probs=48.3

Q ss_pred             HHHHhhhcCceEEEEEeeC------ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           87 LDTLSRTKGAKVVAKVYWG------DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g------~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      +.+++.+.++.+.+ +..|      +..+......++.++|++|+.+.+..-    -...-++.++.....|.+|+.+.+
T Consensus        23 lDErAdRedI~vrv-~gsGaKm~pe~~~~~~~~~~~~~~pDf~i~isPN~a~----PGP~~ARE~l~~~~iP~IvI~D~p   97 (277)
T PRK00994         23 LDERADREDIDVRV-VGSGAKMGPEEVEEVVKKMLEEWKPDFVIVISPNPAA----PGPKKAREILKAAGIPCIVIGDAP   97 (277)
T ss_pred             HHhhhcccCceEEE-eccCCCCCHHHHHHHHHHHHHhhCCCEEEEECCCCCC----CCchHHHHHHHhcCCCEEEEcCCC
Confidence            34555566776664 3343      223445556688899999998765332    134579999999999999998776


Q ss_pred             CC
Q 031202          161 VS  162 (164)
Q Consensus       161 ~~  162 (164)
                      ..
T Consensus        98 ~~   99 (277)
T PRK00994         98 GK   99 (277)
T ss_pred             cc
Confidence            44

>PLN00200 argininosuccinate synthase; Provisional

Probab=90.66  E-value=6.6  Score=30.44  Aligned_cols=37  Identities=11%  Similarity=0.265  Sum_probs=29.8

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      .++|+|+++|.-+|..++.++.+   ..+.+++.+++...
T Consensus         5 ~~kVvva~SGGlDSsvla~~L~e---~~G~eViav~id~G   41 (404)
T PLN00200          5 LNKVVLAYSGGLDTSVILKWLRE---NYGCEVVCFTADVG   41 (404)
T ss_pred             CCeEEEEEeCCHHHHHHHHHHHH---hhCCeEEEEEEECC
Confidence            57999999999999888777655   24778999998755

>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional

Probab=90.51  E-value=1.5  Score=34.61  Aligned_cols=35  Identities=11%  Similarity=0.029  Sum_probs=28.1

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      -++|++++.|+-.+.++.+..-.|.+ .|..|+++-
T Consensus        70 ~k~IllgVtGsIAayka~~lvr~L~k-~G~~V~Vvm  104 (475)
T PRK13982         70 SKRVTLIIGGGIAAYKALDLIRRLKE-RGAHVRCVL  104 (475)
T ss_pred             CCEEEEEEccHHHHHHHHHHHHHHHh-CcCEEEEEE
Confidence            47999999999999999998777754 577766554

>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases

Probab=90.51  E-value=2.6  Score=25.55  Aligned_cols=34  Identities=21%  Similarity=0.152  Sum_probs=25.9

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      |+|+++|..+|-.++..+.++    +.++.++|+....
T Consensus         1 v~v~~SGG~DS~~ll~~l~~~----~~~~~~~~~~~~~   34 (103)
T cd01986           1 VLVAFSGGKDSSVAAALLKKL----GYQVIAVTVDHGI   34 (103)
T ss_pred             CEEEEeCcHHHHHHHHHHHHh----CCCEEEEEEcCCC
Confidence            589999999998877776664    2378888887664

The domain forms a apha/beta/apha fold which binds to Adenosine group..

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=90.38  E-value=6.5  Score=30.74  Aligned_cols=93  Identities=15%  Similarity=0.133  Sum_probs=54.6

Q ss_pred             EEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHH
Q 031202            8 GVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDIL   87 (164)
Q Consensus         8 Lv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (164)
                      ++...|+.-+-.+...|..+. ..|.++.++.....+                                    ..+.+++
T Consensus       105 lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R------------------------------------~aA~eQL  147 (429)
T TIGR01425       105 FVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFR------------------------------------AGAFDQL  147 (429)
T ss_pred             EECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccc------------------------------------hhHHHHH
Confidence            344455555555666666554 346677766543222                                    2455666


Q ss_pred             HHHhhhcCceEEEEEeeCChhh---HHHHHHHhcCCCEEEEeecCCcccccee
Q 031202           88 DTLSRTKGAKVVAKVYWGDPRE---KLCDAVEDLKLDTLVVGSRGLGALKRVL  137 (164)
Q Consensus        88 ~~~~~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliv~g~~~~~~~~~~~  137 (164)
                      +.++...++++.......+|..   .-++.++..++|+|++-+.|+......+
T Consensus       148 k~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~l  200 (429)
T TIGR01425       148 KQNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSL  200 (429)
T ss_pred             HHHhhccCCeEEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHH
Confidence            7777777777654333346543   3344556668899999888876554333

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>TIGR00032 argG argininosuccinate synthase

Probab=90.14  E-value=7.3  Score=30.11  Aligned_cols=34  Identities=15%  Similarity=0.313  Sum_probs=27.4

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      +|+|+++|.-+|..++.++.+.    +.+++.+|+...
T Consensus         1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~G   34 (394)
T TIGR00032         1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADVG   34 (394)
T ss_pred             CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEecC
Confidence            5899999999998888776553    778999999754

argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.

>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type

Probab=89.82  E-value=1.5  Score=34.64  Aligned_cols=85  Identities=13%  Similarity=0.137  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCc
Q 031202           17 SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGA   96 (164)
Q Consensus        17 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (164)
                      +-.||..|++    .+.+|.++++.++.....          ...           .........+.+..+++.+...|+
T Consensus        15 DN~AL~~A~~----~~~~vl~vfi~dp~~~~~----------~~~-----------~~~r~~Fl~esL~~L~~~L~~~G~   69 (471)
T TIGR03556        15 DNIGLAAARQ----QSAKVVGLFCLDPNILQA----------DDM-----------APARVAYLIGCLQELQQRYQQAGS   69 (471)
T ss_pred             hHHHHHHHHh----cCCCEEEEEEEchhhhcc----------ccC-----------CHHHHHHHHHHHHHHHHHHHHCCC
Confidence            3356666664    356799999988753211          000           000012345667777777777887


Q ss_pred             eEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           97 KVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        97 ~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      .+.  ++.|++.+.|.+.+++.+++.|+....
T Consensus        70 ~L~--v~~G~p~~vl~~l~~~~~~~~V~~~~~   99 (471)
T TIGR03556        70 QLL--ILQGDPVQLIPQLAQQLGAKAVYWNLD   99 (471)
T ss_pred             CeE--EEECCHHHHHHHHHHHcCCCEEEEecc
Confidence            775  668999999999999999999998654

This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=89.81  E-value=8.1  Score=30.17  Aligned_cols=95  Identities=18%  Similarity=0.255  Sum_probs=67.1

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHH
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDI   86 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (164)
                      .+|.+.|+.-.-.+...|..+-+ .+-++-++....-+                                    -.+.++
T Consensus       104 mmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~R------------------------------------pAA~eQ  146 (451)
T COG0541         104 LMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYR------------------------------------PAAIEQ  146 (451)
T ss_pred             EEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCC------------------------------------hHHHHH
Confidence            45667777666667777777766 77777777665443                                    367778


Q ss_pred             HHHHhhhcCceEEEEEeeCChh---hHHHHHHHhcCCCEEEEeecCCccccceee
Q 031202           87 LDTLSRTKGAKVVAKVYWGDPR---EKLCDAVEDLKLDTLVVGSRGLGALKRVLL  138 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliv~g~~~~~~~~~~~~  138 (164)
                      ++..+.+.++.+-......+|.   ..=++.+++..+|++++-+.||-.+..-++
T Consensus       147 L~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm  201 (451)
T COG0541         147 LKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELM  201 (451)
T ss_pred             HHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHH
Confidence            8888888888887653333555   555677888899999998888776655444

>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit

Probab=89.57  E-value=7  Score=29.12  Aligned_cols=37  Identities=19%  Similarity=0.164  Sum_probs=28.3

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ++++|+++|.-+|-.++..+..   ..|.+++.+|+...-
T Consensus        17 ~kVvValSGGVDSsvla~ll~~---~~G~~v~av~vd~G~   53 (311)
T TIGR00884        17 AKVIIALSGGVDSSVAAVLAHR---AIGDRLTCVFVDHGL   53 (311)
T ss_pred             CcEEEEecCChHHHHHHHHHHH---HhCCCEEEEEEeCCC
Confidence            6899999999988776655544   246789999998664

This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit

>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed

Probab=89.30  E-value=7.9  Score=29.31  Aligned_cols=35  Identities=23%  Similarity=0.237  Sum_probs=26.2

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      ++|+|+++|..+|..++..+.+    .+.++..+|+...
T Consensus         1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~~   35 (346)
T PRK00143          1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKLW   35 (346)
T ss_pred             CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeCC
Confidence            3899999999999776554433    4667889988754

>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway

Probab=89.19  E-value=5  Score=26.93  Aligned_cols=35  Identities=11%  Similarity=0.001  Sum_probs=28.3

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      +++|+++|..+|..++..+.+    .|.+++.+|+....
T Consensus         1 ~vlv~~SGG~DS~~la~ll~~----~g~~v~av~~d~g~   35 (177)
T cd01712           1 KALALLSGGIDSPVAAWLLMK----RGIEVDALHFNSGP   35 (177)
T ss_pred             CEEEEecCChhHHHHHHHHHH----cCCeEEEEEEeCCC
Confidence            589999999999877776655    47889999998664

It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.

>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily

Probab=89.07  E-value=5.3  Score=27.51  Aligned_cols=91  Identities=18%  Similarity=0.183  Sum_probs=53.1

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      ++++.++|..+|-.++.++.+    .+-++..++...+.....                          .  -....-.+
T Consensus         1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~~~~~~~--------------------------~--~~h~~~~e   48 (194)
T cd01994           1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLTPEEGSS--------------------------M--MYHTVNHE   48 (194)
T ss_pred             CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEecCCCCc--------------------------c--cccccCHH
Confidence            478999999999887777766    366777777665432110                          0  00011345


Q ss_pred             HHHHHhhhcCceEEEEEee---CChhhH----HHHHHHhcCCCEEEEeecC
Q 031202           86 ILDTLSRTKGAKVVAKVYW---GDPREK----LCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~---g~~~~~----I~~~a~~~~~dliv~g~~~  129 (164)
                      .++.+++..|++....-..   .+..+.    +.+..++ +++.+|-|..-
T Consensus        49 ~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~   98 (194)
T cd01994          49 LLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAIL   98 (194)
T ss_pred             HHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccc
Confidence            5666777778876543221   123333    3333333 68999988753

Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.

>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed

Probab=88.34  E-value=1.1  Score=27.67  Aligned_cols=69  Identities=9%  Similarity=0.024  Sum_probs=44.5

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      -....+++.+.+.|++++..  ..+. .++.+.....++|+|++|..-+-..      ......+..-++||.++++.
T Consensus        16 lla~k~k~~~~e~gi~~~i~--a~~~-~e~~~~~~~~~~DvIll~PQi~~~~------~~i~~~~~~~~ipv~~I~~~   84 (104)
T PRK09590         16 MMAKKTTEYLKEQGKDIEVD--AITA-TEGEKAIAAAEYDLYLVSPQTKMYF------KQFEEAGAKVGKPVVQIPPQ   84 (104)
T ss_pred             HHHHHHHHHHHHCCCceEEE--EecH-HHHHHhhccCCCCEEEEChHHHHHH------HHHHHHhhhcCCCEEEeCHH
Confidence            44566677888889987643  3332 3455555666789999986633221      23555666778999998753

>TIGR02765 crypto_DASH cryptochrome, DASH family

Probab=88.32  E-value=2.7  Score=32.67  Aligned_cols=47  Identities=26%  Similarity=0.342  Sum_probs=38.8

Q ss_pred             ChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           80 NPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      ..+.++.+++.++..|+...  ++.|++.+.|.+.+++.+++.|+....
T Consensus        59 l~esL~~L~~~L~~~g~~L~--v~~G~~~~vl~~L~~~~~~~~V~~~~~  105 (429)
T TIGR02765        59 LLESLKDLRTSLRKLGSDLL--VRSGKPEDVLPELIKELGVRTVFLHQE  105 (429)
T ss_pred             HHHHHHHHHHHHHHcCCCeE--EEeCCHHHHHHHHHHHhCCCEEEEecc
Confidence            45667777777887788775  668999999999999999999999754

Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.

>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional

Probab=87.67  E-value=1.5  Score=30.07  Aligned_cols=36  Identities=11%  Similarity=-0.031  Sum_probs=29.0

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      |++|++++.|+-.+..+.+..-.|.+..+.+++++-
T Consensus         1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~   36 (185)
T PRK06029          1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVI   36 (185)
T ss_pred             CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEE
Confidence            479999999999999999988888665677765543

>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria

Probab=87.07  E-value=4.4  Score=29.44  Aligned_cols=92  Identities=16%  Similarity=0.270  Sum_probs=52.3

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|-|.+...+.+..-++-|-++.+.++.. .+.|+..|..+..                              ..+....
T Consensus         4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~tyPdnf~~------------------------------e~EttIs   52 (275)
T PF12683_consen    4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTYPDNFMS------------------------------EQETTIS   52 (275)
T ss_dssp             EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE--TTGGG------------------------------CHHHHHH
T ss_pred             EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeCCCcccc------------------------------hHHHHHH
Confidence            56666666666666777788888777766 8899999986542                              1344455


Q ss_pred             HHHHHhhhcCceEEEEEee-CCh-hhHHHHHHHhcCCCEEEEeecCC
Q 031202           86 ILDTLSRTKGAKVVAKVYW-GDP-REKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~-g~~-~~~I~~~a~~~~~dliv~g~~~~  130 (164)
                      ++...+.+..+++-  |.. +.+ .-+-.+-+++.+.|+++++...+
T Consensus        53 kI~~lAdDp~mKaI--Vv~q~vpGt~~af~kIkekRpDIl~ia~~~~   97 (275)
T PF12683_consen   53 KIVSLADDPDMKAI--VVSQAVPGTAEAFRKIKEKRPDILLIAGEPH   97 (275)
T ss_dssp             HHHGGGG-TTEEEE--EEE-SS---HHHHHHHHHH-TTSEEEESS--
T ss_pred             HHHHhccCCCccEE--EEeCCCcchHHHHHHHHhcCCCeEEEcCCCc
Confidence            55555555555544  443 322 23445567778889999986543

They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.

>PRK00074 guaA GMP synthase; Reviewed

Probab=86.83  E-value=15  Score=29.54  Aligned_cols=37  Identities=19%  Similarity=0.217  Sum_probs=28.5

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ++++|+++|.-+|..++..+.+.   .+.+++.+|+....
T Consensus       216 ~~vlva~SGGvDS~vll~ll~~~---lg~~v~av~vd~g~  252 (511)
T PRK00074        216 KKVILGLSGGVDSSVAAVLLHKA---IGDQLTCVFVDHGL  252 (511)
T ss_pred             CcEEEEeCCCccHHHHHHHHHHH---hCCceEEEEEeCCC
Confidence            68999999999997777666543   36789999997553

>PRK08576 hypothetical protein; Provisional

Probab=86.51  E-value=11  Score=29.59  Aligned_cols=34  Identities=26%  Similarity=0.139  Sum_probs=25.6

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      +++|+++|..+|..++..+.+...    .+.++++...
T Consensus       236 rVvVafSGGKDStvLL~La~k~~~----~V~aV~iDTG  269 (438)
T PRK08576        236 TVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVDTG  269 (438)
T ss_pred             CEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeCCC
Confidence            899999999999888876666432    3777777544

>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA

Probab=86.29  E-value=4.1  Score=27.62  Aligned_cols=33  Identities=18%  Similarity=0.152  Sum_probs=24.1

Q ss_pred             EEEEEecCChh-hHHHHHHHHHHhccCCCeEEEE
Q 031202            6 TVGVGMDNSPN-SKAALRWAADNLIDSGDLIILI   38 (164)
Q Consensus         6 ~ILv~~d~s~~-s~~al~~a~~la~~~~~~l~ll   38 (164)
                      ||++++.+|.. .....+....+.++.|.+++++
T Consensus         1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv   34 (174)
T TIGR02699         1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVF   34 (174)
T ss_pred             CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEE
Confidence            58999999944 3557788888877777776654

The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.

>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed

Probab=85.92  E-value=12  Score=27.59  Aligned_cols=40  Identities=13%  Similarity=0.152  Sum_probs=28.3

Q ss_pred             HhhhcCceEEEEEe----eCChhhHHHHHHHhcCCCEEEEeecC
Q 031202           90 LSRTKGAKVVAKVY----WGDPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        90 ~~~~~~~~~~~~v~----~g~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+++.|+++...-.    ..+....+.+..++.++|++|+....
T Consensus       132 lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~  175 (286)
T PRK06027        132 LVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM  175 (286)
T ss_pred             HHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence            36677888765211    12345678999999999999998653

>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic

Probab=85.92  E-value=9.4  Score=29.46  Aligned_cols=35  Identities=9%  Similarity=0.170  Sum_probs=27.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      -++|++++.|+..+..+++..-.|.+ .+.+++++-
T Consensus         3 ~k~IllgiTGSiaa~~~~~ll~~L~~-~g~~V~vv~   37 (390)
T TIGR00521         3 NKKILLGVTGGIAAYKTVELVRELVR-QGAEVKVIM   37 (390)
T ss_pred             CCEEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEE
Confidence            37999999999999999888877744 577766543

This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.

>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria

Probab=85.39  E-value=1.8  Score=26.39  Aligned_cols=67  Identities=10%  Similarity=0.128  Sum_probs=43.5

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .-..+++++.+++.|++++..  ... ..++.+...  ++|++++|..-+-.+      ......+.....||.+++.
T Consensus        14 s~la~km~~~a~~~gi~~~i~--a~~-~~e~~~~~~--~~Dvill~PQv~~~~------~~i~~~~~~~~ipv~~I~~   80 (99)
T cd05565          14 GLLANALNKGAKERGVPLEAA--AGA-YGSHYDMIP--DYDLVILAPQMASYY------DELKKDTDRLGIKLVTTTG   80 (99)
T ss_pred             HHHHHHHHHHHHHCCCcEEEE--Eee-HHHHHHhcc--CCCEEEEcChHHHHH------HHHHHHhhhcCCCEEEeCH
Confidence            355677888888899988754  222 233444444  459999987644322      2355667777899988874

In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.

>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component

Probab=85.33  E-value=1.8  Score=26.08  Aligned_cols=66  Identities=14%  Similarity=0.216  Sum_probs=42.1

Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ....+++.+.+.|++++..  ..+.. ++.+...  ++|+|+++..-+...      ...+..+...++||.++++.
T Consensus        19 l~~k~~~~~~~~gi~~~v~--a~~~~-~~~~~~~--~~Dvill~pqi~~~~------~~i~~~~~~~~ipv~~I~~~   84 (95)
T TIGR00853        19 LVNKMNKAAEEYGVPVKIA--AGSYG-AAGEKLD--DADVVLLAPQVAYML------PDLKKETDKKGIPVEVINGA   84 (95)
T ss_pred             HHHHHHHHHHHCCCcEEEE--EecHH-HHHhhcC--CCCEEEECchHHHHH------HHHHHHhhhcCCCEEEeChh
Confidence            4567778888889987743  33322 2333333  469999987643322      23555677788999999864

Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.

>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed

Probab=85.25  E-value=2.8  Score=32.68  Aligned_cols=55  Identities=18%  Similarity=0.219  Sum_probs=32.9

Q ss_pred             EeeC-ChhhHHHHHHHhcC---CCEEEEeecCCccccceee-ccchhHHhcCCCccEEEE
Q 031202          102 VYWG-DPREKLCDAVEDLK---LDTLVVGSRGLGALKRVLL-GSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus       102 v~~g-~~~~~I~~~a~~~~---~dliv~g~~~~~~~~~~~~-gs~~~~v~~~~~~pVliv  156 (164)
                      .+.| +....|++..+..+   +|.||+++.|-+...-+.| .-..-..+..+++||+.-
T Consensus       171 ~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS~eDL~~Fn~e~v~~ai~~~~~Pvis~  230 (438)
T PRK00286        171 LVQGEGAAASIVAAIERANARGEDVLIVARGGGSLEDLWAFNDEAVARAIAASRIPVISA  230 (438)
T ss_pred             cCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCCHHHhhccCcHHHHHHHHcCCCCEEEe
Confidence            3456 56777777655433   5999999766442221222 223444566789998863

>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase

Probab=85.22  E-value=13  Score=27.51  Aligned_cols=36  Identities=17%  Similarity=0.138  Sum_probs=27.0

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      +++|+++|.-+|-.++..+.+.   .|.++..+|+....
T Consensus         1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~g~   36 (295)
T cd01997           1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDNGL   36 (295)
T ss_pred             CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecCCC
Confidence            5899999999997766665542   46689999997653

It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.

>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6

Probab=84.66  E-value=0.92  Score=27.73  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             ChhhHHHHHHHhcCCCEEEEeec
Q 031202          106 DPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus       106 ~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      +-.++|.++++++++|++|+|..
T Consensus        49 ~d~~~l~~~a~~~~idlvvvGPE   71 (100)
T PF02844_consen   49 TDPEELADFAKENKIDLVVVGPE   71 (100)
T ss_dssp             T-HHHHHHHHHHTTESEEEESSH
T ss_pred             CCHHHHHHHHHHcCCCEEEECCh
Confidence            44789999999999999999975

3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....

>PRK00919 GMP synthase subunit B; Validated

Probab=84.64  E-value=14  Score=27.48  Aligned_cols=37  Identities=16%  Similarity=0.135  Sum_probs=29.5

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ++++|+++|.-+|-.++..+.+   ..|.+++.+++....
T Consensus        22 ~kVlVa~SGGVDSsvla~la~~---~lG~~v~aV~vD~G~   58 (307)
T PRK00919         22 GKAIIALSGGVDSSVAAVLAHR---AIGDRLTPVFVDTGL   58 (307)
T ss_pred             CCEEEEecCCHHHHHHHHHHHH---HhCCeEEEEEEECCC
Confidence            6899999999999877765554   257789999998665

>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases

Probab=84.59  E-value=9.3  Score=25.46  Aligned_cols=24  Identities=13%  Similarity=0.177  Sum_probs=18.9

Q ss_pred             hhhHHHHHHHhcCCCEEEEeecCC
Q 031202          107 PREKLCDAVEDLKLDTLVVGSRGL  130 (164)
Q Consensus       107 ~~~~I~~~a~~~~~dliv~g~~~~  130 (164)
                      ..+.|.+.+++.++|+|++|....
T Consensus        71 ~a~al~~~i~~~~p~~Vl~~~t~~   94 (168)
T cd01715          71 YAPALVALAKKEKPSHILAGATSF   94 (168)
T ss_pred             HHHHHHHHHHhcCCCEEEECCCcc
Confidence            457788888888899999987654

ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.

>PRK00109 Holliday junction resolvase-like protein; Reviewed

Probab=84.29  E-value=1.5  Score=28.52  Aligned_cols=55  Identities=18%  Similarity=0.168  Sum_probs=37.5

Q ss_pred             hhhHHHHHHHhcCCCEEEEeecCC-cccc---ceeeccchhHHhcCCCccEEEEeCCCC
Q 031202          107 PREKLCDAVEDLKLDTLVVGSRGL-GALK---RVLLGSVSNHVVTNSSCPVTVVKGNPV  161 (164)
Q Consensus       107 ~~~~I~~~a~~~~~dliv~g~~~~-~~~~---~~~~gs~~~~v~~~~~~pVliv~~~~~  161 (164)
                      ..+.|.+.+++.+++.||+|-.-. ++..   .......++.+.++.++||..+-.+..
T Consensus        42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~T  100 (138)
T PRK00109         42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERLS  100 (138)
T ss_pred             HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcC
Confidence            478899999999999999994321 2211   112334567777777899998876543

>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase

Probab=83.91  E-value=17  Score=27.67  Aligned_cols=33  Identities=15%  Similarity=0.248  Sum_probs=25.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEe
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQ   41 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~   41 (164)
                      ++|+|+++|..+|..++..+.+    .+-+++.+++.
T Consensus         1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~   33 (352)
T TIGR00420         1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK   33 (352)
T ss_pred             CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence            3799999999999776665544    46688999885

tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.

>PRK08349 hypothetical protein; Validated

Probab=83.61  E-value=12  Score=25.73  Aligned_cols=33  Identities=12%  Similarity=0.106  Sum_probs=26.4

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeC
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQP   42 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~   42 (164)
                      ++++.++|..+|-.++-.+..    .+.+++.+|+..
T Consensus         2 ~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~   34 (198)
T PRK08349          2 KAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ   34 (198)
T ss_pred             cEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence            689999999999877654433    578999999986

>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed

Probab=83.23  E-value=16  Score=26.96  Aligned_cols=40  Identities=10%  Similarity=0.072  Sum_probs=28.8

Q ss_pred             HHhhhcCceEEEEEe----eCChhhHHHHHHHhcCCCEEEEeec
Q 031202           89 TLSRTKGAKVVAKVY----WGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        89 ~~~~~~~~~~~~~v~----~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      +.+++.|+++...-.    ..+....+.+..++.++|++|+...
T Consensus       135 ~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy  178 (289)
T PRK13010        135 PLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARY  178 (289)
T ss_pred             HHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehh
Confidence            567777888775211    1234567899999999999999765

>TIGR00237 xseA exodeoxyribonuclease VII, large subunit

Probab=83.11  E-value=4.5  Score=31.58  Aligned_cols=55  Identities=16%  Similarity=0.224  Sum_probs=32.0

Q ss_pred             EeeC-ChhhHHHHHHH----hcCCCEEEEeecCCccccceeec-cchhHHhcCCCccEEEE
Q 031202          102 VYWG-DPREKLCDAVE----DLKLDTLVVGSRGLGALKRVLLG-SVSNHVVTNSSCPVTVV  156 (164)
Q Consensus       102 v~~g-~~~~~I~~~a~----~~~~dliv~g~~~~~~~~~~~~g-s~~~~v~~~~~~pVliv  156 (164)
                      .+.| +....|+...+    ..++|.||+++.|-+...-+.|. -..-.-+..+++||+.-
T Consensus       165 ~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~~Fn~e~~~rai~~~~~Pvis~  225 (432)
T TIGR00237       165 LVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLWSFNDEKVARAIFLSKIPIISA  225 (432)
T ss_pred             cccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhhhcCcHHHHHHHHcCCCCEEEe
Confidence            3456 56666666544    33479999997654432222232 23344557788999864

This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.

>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]

Probab=83.05  E-value=22  Score=28.31  Aligned_cols=108  Identities=10%  Similarity=0.034  Sum_probs=61.8

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      ++|+..+.+.-    ++..+..|+..+-++.++-|...+..+.                                +.+++
T Consensus       361 dviltyg~s~v----V~~ill~A~~~~k~frVvVVDSRP~~EG--------------------------------~~~lr  404 (556)
T KOG1467|consen  361 DVLLTYGSSSV----VNMILLEAKELGKKFRVVVVDSRPNLEG--------------------------------RKLLR  404 (556)
T ss_pred             CEEEEecchHH----HHHHHHHHHHhCcceEEEEEeCCCCcch--------------------------------HHHHH
Confidence            46666666654    4444444666677778877776665431                                33443


Q ss_pred             HHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecC--Ccc-ccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           86 ILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRG--LGA-LKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~--~~~-~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                          .+...|++|......     ++-....+.  +-+++|.+.  .++ .-.+...+-..-+.++..+|||+|=..-
T Consensus       405 ----~Lv~~GinctYv~I~-----a~syim~ev--tkvfLGahailsNG~vysR~GTa~valvAna~nVPVlVCCE~y  471 (556)
T KOG1467|consen  405 ----RLVDRGINCTYVLIN-----AASYIMLEV--TKVFLGAHAILSNGAVYSRVGTACVALVANAFNVPVLVCCEAY  471 (556)
T ss_pred             ----HHHHcCCCeEEEEeh-----hHHHHHHhc--ceeeechhhhhcCcchhhhcchHHHHHHhcccCCCEEEEechh
Confidence                444569999875432     233333343  889999874  122 1111222233445677789999996543

>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]

Probab=82.56  E-value=16  Score=26.46  Aligned_cols=90  Identities=14%  Similarity=0.214  Sum_probs=57.0

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      +...+++|+.+|.-+|-.++..|...   .|.++..+.+..+-.+                                  +
T Consensus        15 k~~~kv~vAfSGGvDSslLa~la~~~---lG~~v~AvTv~sP~~p----------------------------------~   57 (269)
T COG1606          15 KEKKKVVVAFSGGVDSSLLAKLAKEA---LGDNVVAVTVDSPYIP----------------------------------R   57 (269)
T ss_pred             hhcCeEEEEecCCccHHHHHHHHHHH---hccceEEEEEecCCCC----------------------------------h
Confidence            34569999999998887665555443   4577788888775432                                  1


Q ss_pred             hHHHHHHHHhhhcCceEEEE------------------EeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           82 EVLDILDTLSRTKGAKVVAK------------------VYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~------------------v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      .-.+.+...+...|++-+..                  .....+.+.|.+.+.+.++|.++=|+.
T Consensus        58 ~e~e~A~~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN  122 (269)
T COG1606          58 REIEEAKNIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN  122 (269)
T ss_pred             hhhhHHHHHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence            22233333444444433321                  111245689999999999999999875

>TIGR00655 PurU formyltetrahydrofolate deformylase

Probab=82.54  E-value=17  Score=26.71  Aligned_cols=39  Identities=10%  Similarity=0.078  Sum_probs=27.0

Q ss_pred             HhhhcCceEEEEEee----CChhhHHHHHHHhcCCCEEEEeec
Q 031202           90 LSRTKGAKVVAKVYW----GDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        90 ~~~~~~~~~~~~v~~----g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      .+++.|+++...-..    .+....+.+..++.++|++|+...
T Consensus       127 ~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy  169 (280)
T TIGR00655       127 LVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY  169 (280)
T ss_pred             HHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence            366678887653221    123567888899999999999754

This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=82.45  E-value=17  Score=28.44  Aligned_cols=100  Identities=18%  Similarity=0.106  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCc
Q 031202           17 SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGA   96 (164)
Q Consensus        17 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (164)
                      |.-+++.+.++|++.    .++||.-..+                                      .++++-++.+.++
T Consensus       107 STLLLQva~~lA~~~----~vLYVsGEES--------------------------------------~~QiklRA~RL~~  144 (456)
T COG1066         107 STLLLQVAARLAKRG----KVLYVSGEES--------------------------------------LQQIKLRADRLGL  144 (456)
T ss_pred             HHHHHHHHHHHHhcC----cEEEEeCCcC--------------------------------------HHHHHHHHHHhCC
Confidence            677888899988866    6788875542                                      3344444555565


Q ss_pred             eEEEE-EeeCChhhHHHHHHHhcCCCEEEEeecCCcccc--ceeeccchh---------HHhcCCCccEEEEeC
Q 031202           97 KVVAK-VYWGDPREKLCDAVEDLKLDTLVVGSRGLGALK--RVLLGSVSN---------HVVTNSSCPVTVVKG  158 (164)
Q Consensus        97 ~~~~~-v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~--~~~~gs~~~---------~v~~~~~~pVliv~~  158 (164)
                      ..... +..-.-.+.|+..+++.++|++|+-+=+.-...  ...-||+++         ++++...+++++|-+
T Consensus       145 ~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVGH  218 (456)
T COG1066         145 PTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVGH  218 (456)
T ss_pred             CccceEEehhcCHHHHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEEE
Confidence            43333 334456899999999999999999764321111  122344432         466777789988854

>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination

Probab=82.08  E-value=3.6  Score=26.60  Aligned_cols=57  Identities=18%  Similarity=0.175  Sum_probs=40.7

Q ss_pred             CChhhHHHHHHHhcCCCEEEEeecCCc-c---ccceeeccchhHHhcCC-CccEEEEeCCCC
Q 031202          105 GDPREKLCDAVEDLKLDTLVVGSRGLG-A---LKRVLLGSVSNHVVTNS-SCPVTVVKGNPV  161 (164)
Q Consensus       105 g~~~~~I~~~a~~~~~dliv~g~~~~~-~---~~~~~~gs~~~~v~~~~-~~pVliv~~~~~  161 (164)
                      +...+.|.+.+++.+++.||+|-.-.. +   ......-..++.+.... ++||..+-.+..
T Consensus        37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr~T   98 (135)
T PF03652_consen   37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDERLT   98 (135)
T ss_dssp             CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECSCS
T ss_pred             chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCChh
Confidence            478999999999999999999964222 1   11112334567777776 899999976553

The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.

>PRK11070 ssDNA exonuclease RecJ; Provisional

Probab=81.95  E-value=25  Score=28.74  Aligned_cols=92  Identities=17%  Similarity=0.126  Sum_probs=56.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      ++|+|.-|.+-+.-.+........+..+++-+. +.++.+....       .                     .......
T Consensus        70 e~I~I~gDyD~DGitstail~~~L~~~g~~~~~-~~IP~R~~eG-------Y---------------------Gl~~~~i  120 (575)
T PRK11070         70 TRIIVVGDFDADGATSTALSVLALRSLGCSNVD-YLVPNRFEDG-------Y---------------------GLSPEVV  120 (575)
T ss_pred             CEEEEEEecCccHHHHHHHHHHHHHHcCCCceE-EEeCCCCcCC-------C---------------------CCCHHHH
Confidence            588888888877766666666666777763222 2334332110       0                     1122333


Q ss_pred             HHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecC
Q 031202           85 DILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      +.+.+    .+...-..+-.|.-..+-++++++.++|+||+-+|.
T Consensus       121 ~~~~~----~~~~LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~  161 (575)
T PRK11070        121 DQAHA----RGAQLIVTVDNGISSHAGVAHAHALGIPVLVTDHHL  161 (575)
T ss_pred             HHHHh----cCCCEEEEEcCCcCCHHHHHHHHHCCCCEEEECCCC
Confidence            33332    355555446678778888899999999999998773

>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]

Probab=81.46  E-value=15  Score=27.20  Aligned_cols=77  Identities=13%  Similarity=0.190  Sum_probs=52.1

Q ss_pred             CCChhHHHHHHHHhhhcCceEEEEEeeCC-hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           78 TSNPEVLDILDTLSRTKGAKVVAKVYWGD-PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      ...++.+..+.+.++..+.++..++.+.. -+..+.+.+...++|.||.+.-.-+      ++.++..+...-.-|+-|+
T Consensus        16 ~~~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGDGT------v~evingl~~~~~~~Lgil   89 (301)
T COG1597          16 GKAKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGDGT------VNEVANGLAGTDDPPLGIL   89 (301)
T ss_pred             cchhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCcch------HHHHHHHHhcCCCCceEEe
Confidence            44677888888889999999998877654 5777777777778999998754322      2334444444433337777


Q ss_pred             eCCC
Q 031202          157 KGNP  160 (164)
Q Consensus       157 ~~~~  160 (164)
                      |-.+
T Consensus        90 P~GT   93 (301)
T COG1597          90 PGGT   93 (301)
T ss_pred             cCCc
Confidence            7544

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=81.20  E-value=24  Score=27.62  Aligned_cols=53  Identities=17%  Similarity=0.166  Sum_probs=32.1

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCcccc
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALK  134 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~  134 (164)
                      ...+.+..++...++.+.......+..+.|..+....++|+|++-+.|++.-.
T Consensus       283 aAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd  335 (436)
T PRK11889        283 GTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRA  335 (436)
T ss_pred             HHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcC
Confidence            35556666777777776642222244444444444457899999888776543

>TIGR00930 2a30 K-Cl cotransporter

Probab=81.14  E-value=25  Score=30.65  Aligned_cols=95  Identities=19%  Similarity=0.075  Sum_probs=62.0

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      ++||.+........+++++..+.+ .+.-+.+.|+.+.+...                 ..           ++.+...+
T Consensus       577 qiLvl~~~p~~~~~Ll~f~~~l~~-~~gl~i~~~v~~~~~~~-----------------~~-----------~~~~~~~~  627 (953)
T TIGR00930       577 QCLVLTGPPVCRPALLDFASQFTK-GKGLMICGSVIQGPRLE-----------------CV-----------KEAQAAEA  627 (953)
T ss_pred             eEEEEeCCCcCcHHHHHHHHHhcc-CCcEEEEEEEecCchhh-----------------hH-----------HHHHHHHH
Confidence            689999877778889999999874 33466677887654211                 00           01233445


Q ss_pred             HHHHHhhhcCceEEEEE-eeCChhhHHHHHHHhc-----CCCEEEEeecC
Q 031202           86 ILDTLSRTKGAKVVAKV-YWGDPREKLCDAVEDL-----KLDTLVVGSRG  129 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v-~~g~~~~~I~~~a~~~-----~~dliv~g~~~  129 (164)
                      ++.++.+..+++--..+ ...++.+++....+..     +++.++||.+.
T Consensus       628 ~~~~~~~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~  677 (953)
T TIGR00930       628 KIQTWLEKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKK  677 (953)
T ss_pred             HHHHHHHHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence            56666666677654443 3457888888887764     47889998763

>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]

Probab=80.99  E-value=5.1  Score=31.26  Aligned_cols=73  Identities=19%  Similarity=0.285  Sum_probs=40.1

Q ss_pred             HHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHh----cCCCEEEEeecCCccccc-eee-ccchhHHhcCCCccEEE
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVED----LKLDTLVVGSRGLGALKR-VLL-GSVSNHVVTNSSCPVTV  155 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~----~~~dliv~g~~~~~~~~~-~~~-gs~~~~v~~~~~~pVli  155 (164)
                      ++..+++.+....+-+-...+.| +...+|++.++.    ..+|.||+|..|-+ +++ +.| --..-.-+..|+.||+-
T Consensus       152 Il~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS-iEDLW~FNdE~vaRAi~~s~iPvIS  230 (440)
T COG1570         152 ILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGS-IEDLWAFNDEIVARAIAASRIPVIS  230 (440)
T ss_pred             HHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcch-HHHHhccChHHHHHHHHhCCCCeEe
Confidence            44444444433333333333455 666777666443    34999999966543 443 222 22444566788899875


Q ss_pred             E
Q 031202          156 V  156 (164)
Q Consensus       156 v  156 (164)
                      -
T Consensus       231 A  231 (440)
T COG1570         231 A  231 (440)
T ss_pred             e
Confidence            3

>PRK11914 diacylglycerol kinase; Reviewed

Probab=80.60  E-value=12  Score=27.68  Aligned_cols=73  Identities=18%  Similarity=0.211  Sum_probs=43.0

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      .+..+++.+.+++.+.++....... .-...+.+.+.+.++|+||+..-. +.+.     .++..+. ..+.|+-++|-.
T Consensus        25 ~~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GGD-GTi~-----evv~~l~-~~~~~lgiiP~G   97 (306)
T PRK11914         25 PHAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVGGD-GVIS-----NALQVLA-GTDIPLGIIPAG   97 (306)
T ss_pred             HHHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEECCc-hHHH-----HHhHHhc-cCCCcEEEEeCC
Confidence            3445556667777788777544332 336666766667778877765332 2222     2333333 457899999865


Q ss_pred             C
Q 031202          160 P  160 (164)
Q Consensus       160 ~  160 (164)
                      +
T Consensus        98 T   98 (306)
T PRK11914         98 T   98 (306)
T ss_pred             C
Confidence            4

>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional

Probab=80.57  E-value=23  Score=27.06  Aligned_cols=34  Identities=24%  Similarity=0.260  Sum_probs=25.2

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEe
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQ   41 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~   41 (164)
                      .++|+|+++|.-+|..++..+    +..+.++..+++.
T Consensus         5 ~~kVlVa~SGGvDSsv~a~lL----~~~G~eV~av~~~   38 (362)
T PRK14664          5 KKRVLVGMSGGIDSTATCLML----QEQGYEIVGVTMR   38 (362)
T ss_pred             CCEEEEEEeCCHHHHHHHHHH----HHcCCcEEEEEec
Confidence            369999999998887655533    2356778888884

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=80.41  E-value=10  Score=23.48  Aligned_cols=44  Identities=18%  Similarity=0.271  Sum_probs=33.9

Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      +..+...++..|.++.. ....-+.+++++.+.+.++|+|++...
T Consensus        16 ~~~~~~~l~~~G~~V~~-lg~~~~~~~l~~~~~~~~pdvV~iS~~   59 (119)
T cd02067          16 KNIVARALRDAGFEVID-LGVDVPPEEIVEAAKEEDADAIGLSGL   59 (119)
T ss_pred             HHHHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEecc
Confidence            34666777888988743 223467889999999999999999865

This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.

>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS)

Probab=80.20  E-value=3.9  Score=24.64  Aligned_cols=66  Identities=14%  Similarity=0.155  Sum_probs=40.7

Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ..+.+++.+.+.|++++..  ..+..+ +....  .++|+|+++..-+....      ..+..+...++||.++++.
T Consensus        15 ~~~ki~~~~~~~~~~~~v~--~~~~~~-~~~~~--~~~Diil~~Pqv~~~~~------~i~~~~~~~~~pv~~I~~~   80 (96)
T cd05564          15 LVKKMKKAAEKRGIDAEIE--AVPESE-LEEYI--DDADVVLLGPQVRYMLD------EVKKKAAEYGIPVAVIDMM   80 (96)
T ss_pred             HHHHHHHHHHHCCCceEEE--EecHHH-HHHhc--CCCCEEEEChhHHHHHH------HHHHHhccCCCcEEEcChH
Confidence            4557788888889987643  333322 32333  45699999866433222      2333445678999999864

In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d

>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]

Probab=80.16  E-value=23  Score=26.63  Aligned_cols=102  Identities=24%  Similarity=0.241  Sum_probs=56.8

Q ss_pred             EEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHH
Q 031202            7 VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDI   86 (164)
Q Consensus         7 ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (164)
                      +.|=+-+++.  ..+..|+.++...+..+.=+.+-.|.....    ....|........+             ..++++.
T Consensus        69 ~~vQl~gsdp--~~l~eaA~~~~~~g~~~IdlN~GCP~~~V~----~~g~Ga~Ll~~p~l-------------v~~iv~a  129 (323)
T COG0042          69 VAVQLGGSDP--ELLAEAAKIAEELGADIIDLNCGCPSPKVV----KGGAGAALLKNPEL-------------LAEIVKA  129 (323)
T ss_pred             EEEEecCCCH--HHHHHHHHHHHhcCCCEEeeeCCCChHHhc----CCCcchhhcCCHHH-------------HHHHHHH
Confidence            3444445544  456667777777776555555554443221    11122222221111             2234444


Q ss_pred             HHHHhhhcCceEEEEEeeC-Ch----hhHHHHHHHhcCCCEEEEeecC
Q 031202           87 LDTLSRTKGAKVVAKVYWG-DP----REKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~v~~g-~~----~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      +.+...  .+.++++++-| +-    ...+.+.+++.+++.+.+-.+.
T Consensus       130 ~~~av~--~iPVTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgRt  175 (323)
T COG0042         130 MVEAVG--DIPVTVKIRLGWDDDDILALEIARILEDAGADALTVHGRT  175 (323)
T ss_pred             HHHhhC--CCCeEEEEecccCcccccHHHHHHHHHhcCCCEEEEeccc
Confidence            443333  47788777776 22    4579999999999999996553

>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]

Probab=80.08  E-value=11  Score=27.43  Aligned_cols=87  Identities=23%  Similarity=0.222  Sum_probs=56.3

Q ss_pred             ChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhh
Q 031202           14 SPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRT   93 (164)
Q Consensus        14 s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (164)
                      |-.+..-+..++...+..|+++.---...++...++     .+|                     ..++.+..+.+...+
T Consensus        54 svEs~E~i~~~A~~vk~~Ga~~lRGgafKPRTSPYs-----FQG---------------------lge~gL~~l~~a~~~  107 (286)
T COG2876          54 SVESEEQVRETAESVKAAGAKALRGGAFKPRTSPYS-----FQG---------------------LGEEGLKLLKRAADE  107 (286)
T ss_pred             ccCCHHHHHHHHHHHHHcchhhccCCcCCCCCCccc-----ccc---------------------cCHHHHHHHHHHHHH
Confidence            434455555566666778888777777777654331     122                     124778888888899


Q ss_pred             cCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCc
Q 031202           94 KGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLG  131 (164)
Q Consensus        94 ~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~  131 (164)
                      .|+.+.+++..-.-.+.+.++     +|+|=+|.++..
T Consensus       108 ~Gl~vvtEvm~~~~~e~~~~y-----~DilqvGARNMQ  140 (286)
T COG2876         108 TGLPVVTEVMDVRDVEAAAEY-----ADILQVGARNMQ  140 (286)
T ss_pred             cCCeeEEEecCHHHHHHHHhh-----hhHHHhcccchh
Confidence            999999988765545555544     366777766544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	164
2gm3_A	175	Crystal Structure Of An Universal Stress Protein Fa		1e-13
1wjg_A	137	Crystal Structure Of A Probable Atp Binding Protein		6e-08
1mjh_A	162	Structure-Based Assignment Of The Biochemical Funct		1e-06
3tnj_A	150	Crystal Structure Of Universal Stress Protein From		6e-05
2pfs_A	150	Crystal Structure Of Universal Stress Protein From		6e-05
3loq_A	294	The Crystal Structure Of A Universal Stress Protein		3e-04
3hgm_A	147	Universal Stress Protein Tead From The Trap Transpo		7e-04

>pdb|2GM3|A Chain A, Crystal Structure Of An Universal Stress Protein Family Protein From Arabidopsis Thaliana At3g01520 With Amp Bound Length = 175

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 75/149 (50%), Gaps = 11/149 (7%)
Query: 14  SPNSKAALRWAADNLI--DSGDL-IILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREIN 70
           S + K A  W  + ++  ++ D  I+L+HVQ  + D      F+D  S     E+FR+  
Sbjct: 24  SISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDG-----FDDVDSIYASPEDFRD-- 76
Query: 71  FSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGL 130
             +Q        +L+         G    A +  GDP++ +C  V+ ++ D LVVGSRGL
Sbjct: 77  -XRQSNKAKGLHLLEFFVNKCHEIGVGCEAWIKTGDPKDVICQEVKRVRPDFLVVGSRGL 135
Query: 131 GALKRVLLGSVSNHVVTNSSCPVTVVKGN 159
           G  ++V +G+VS   V ++ CPV  +K N
Sbjct: 136 GRFQKVFVGTVSAFCVKHAECPVXTIKRN 164

>pdb|1WJG|A Chain A, Crystal Structure Of A Probable Atp Binding Protein From Thermus Themophilus Hb8 Length = 137

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 66/153 (43%), Gaps = 18/153 (11%)
Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           +T+ +  D S +++ A   A       G  +I++H   P  D+  +  FE+    L    
Sbjct: 3   KTILLAYDGSEHARRAAEVAKAEAEAHGARLIVVHAYEPVPDYLGEPFFEEA---LRRRL 59
Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
           E  E    +   LT  P               K  A +  G P E +  A    K D +V
Sbjct: 60  ERAEGVLEEARALTGVP---------------KEDALLLEGVPAEAILQAARAEKADLIV 104
Query: 125 VGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           +G+RGLGAL  + LGS S  VV  + CPV +V+
Sbjct: 105 MGTRGLGALGSLFLGSQSQRVVAEAPCPVLLVR 137

>pdb|1MJH|A Chain A, Structure-Based Assignment Of The Biochemical Function Of Hypothetical Protein Mj0577: A Test Case Of Structural Genomics Length = 162

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 38/63 (60%)
Query: 95  GAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT 154
           G KV   +  G P E++    ED  +D +++GS G   LK +LLGSV+ +V+  S+ PV 
Sbjct: 96  GFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMGSHGKTNLKEILLGSVTENVIKKSNKPVL 155
Query: 155 VVK 157
           VVK
Sbjct: 156 VVK 158

>pdb|3TNJ|A Chain A, Crystal Structure Of Universal Stress Protein From Nitrosomonas Europaea With Amp Bound Length = 150

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 104 WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           WG+PRE++    E   +D +VVGS G   L  +LLGS +N V+  + C V  V+
Sbjct: 94  WGEPREEIIRIAEQENVDLIVVGSHGRHGLA-LLLGSTANSVLHYAKCDVLAVR 146

>pdb|2PFS|A Chain A, Crystal Structure Of Universal Stress Protein From Nitrosomonas Europaea Length = 150

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 104 WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           WG+PRE++    E   +D +VVGS G   L  +LLGS +N V+  + C V  V+
Sbjct: 94  WGEPREEIIRIAEQENVDLIVVGSHGRHGLA-LLLGSTANSVLHYAKCDVLAVR 146

>pdb|3LOQ|A Chain A, The Crystal Structure Of A Universal Stress Protein From Archaeoglobus Fulgidus Dsm 4304 Length = 294

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 96  AKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTV 155
           A+V+     GDP  ++  A E+     +  GSRG    K++LLGSVS  V+ +S  PV +
Sbjct: 102 AEVIKPFPAGDPVVEIIKASENYSF--IAXGSRGASKFKKILLGSVSEGVLHDSKVPVYI 159
Query: 156 VKGNPV 161
            K + V
Sbjct: 160 FKHDXV 165

>pdb|3HGM|A Chain A, Universal Stress Protein Tead From The Trap Transporter Teaabc Of Halomonas Elongata Length = 147

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 34/119 (28%), Positives = 52/119 (43%), Gaps = 18/119 (15%)
Query: 56  TGSPLVPLEEFREINFSKQYGLTSNPEVLDILD-----------TLSRTKGA-------K 97
           TG+ L  L  F+  +  +     + PE LDI D             ++T+         K
Sbjct: 29  TGAELYILCVFKHHSLLEASLSMARPEQLDIPDDALKDYATEIAVQAKTRATELGVPADK 88
Query: 98  VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
           V A V  G P   +       + D +V+G++G    K +LLGSV+  V  ++ CPV VV
Sbjct: 89  VRAFVKGGRPSRTIVRFARKRECDLVVIGAQGTNGDKSLLLGSVAQRVAGSAHCPVLVV 147

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	164
2gm3_A	175	Unknown protein; AT3G01520, putative ethylene-resp	8e-44
3idf_A	138	USP-like protein; universal, stress, PSI, MCSG, st	4e-30
1tq8_A	163	Hypothetical protein RV1636; MTCY01B2.28, structur	1e-27
2z08_A	137	Universal stress protein family; uncharacterized c	5e-26
1mjh_A	162	Protein (ATP-binding domain of protein MJ0577); hy	4e-25
3s3t_A	146	Nucleotide-binding protein, universal stress PROT	2e-23
2dum_A	170	Hypothetical protein PH0823; conserved hypothetica	4e-23
3hgm_A	147	Universal stress protein TEAD; rossman fold, signa	3e-22
3dlo_A	155	Universal stress protein; unknown function, struct	3e-22
3loq_A	294	Universal stress protein; structural genomics, PSI	1e-20
3loq_A	294	Universal stress protein; structural genomics, PSI	1e-19
3tnj_A	150	Universal stress protein (USP); structural genomic	2e-20
1jmv_A	141	USPA, universal stress protein A; chaperone; 1.85A	5e-19
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	8e-19
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	5e-15
3fg9_A	156	Protein of universal stress protein USPA family; A	9e-18
3fdx_A	143	Putative filament protein / universal stress PROT;	2e-17
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	3e-16
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	2e-12
3olq_A	319	Universal stress protein E; structural genomics, P	3e-13
3olq_A	319	Universal stress protein E; structural genomics, P	3e-13
3mt0_A	290	Uncharacterized protein PA1789; structural genomic	1e-12
3mt0_A	290	Uncharacterized protein PA1789; structural genomic	1e-10
1q77_A	138	Hypothetical protein AQ_178; structural genomics,	2e-06

>2gm3_A Unknown protein; AT3G01520, putative ethylene-responsive protein, USP domain, nucleotide binding domain, AMP; HET: MSE AMP; 2.46A {Arabidopsis thaliana} SCOP: c.26.2.4 Length = 175

 Score =  141 bits (358), Expect = 8e-44
 Identities = 49/171 (28%), Positives = 80/171 (46%), Gaps = 20/171 (11%)

Query: 2   SKARTVGVGMDNS---------PNSKAALRWAADNLIDSGDL---IILIHVQPPNADHTR 49
           S+   V V ++ S          + K A  W  + ++ S      I+L+HVQ  + D   
Sbjct: 3   SEPTKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDG-- 60

Query: 50  KQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPRE 109
              F+D  S     E+FR++   +Q        +L+         G    A +  GDP++
Sbjct: 61  ---FDDVDSIYASPEDFRDM---RQSNKAKGLHLLEFFVNKCHEIGVGCEAWIKTGDPKD 114

Query: 110 KLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP 160
            +C  V+ ++ D LVVGSRGLG  ++V +G+VS   V ++ CPV  +K N 
Sbjct: 115 VICQEVKRVRPDFLVVGSRGLGRFQKVFVGTVSAFCVKHAECPVMTIKRNA 165

>3idf_A USP-like protein; universal, stress, PSI, MCSG, structural genomics, midwest center for structural genomics structure initiative; 2.00A {Wolinella succinogenes} Length = 138

 Score =  105 bits (265), Expect = 4e-30
 Identities = 27/154 (17%), Positives = 57/154 (37%), Gaps = 18/154 (11%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNL-IDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPL 63
           + +   +D++   + A ++  D    D+   + LIHV+P               + L   
Sbjct: 2   KKLLFAIDDTEACERAAQYILDMFGKDADCTLTLIHVKPE--------FMLYGEAVLAAY 53

Query: 64  EEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTL 123
           +E       ++        +     T    KG      +  G+P E + +  +D   + L
Sbjct: 54  DEIEMK--EEEKAK----LLTQKFSTFFTEKGINPFVVIKEGEPVEMVLEEAKDY--NLL 105

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           ++GS     L + +  S  +  +  +  PV +VK
Sbjct: 106 IIGSSENSFLNK-IFASHQDDFIQKAPIPVLIVK 138

>1tq8_A Hypothetical protein RV1636; MTCY01B2.28, structural target, NYSGXRC, PSI, protein structure initiative; 2.40A {Mycobacterium tuberculosis} SCOP: c.26.2.4 Length = 163

 Score =  100 bits (250), Expect = 1e-27
 Identities = 40/157 (25%), Positives = 60/157 (38%), Gaps = 13/157 (8%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           +S  +TV VG D S +S  A+  AA        LII     P + D     + +D    +
Sbjct: 14  LSAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASAYLPQHEDARAADILKDESYKV 73

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
                  EI             + D  +         V  +   G P + L +  ++ K 
Sbjct: 74  TGTAPIYEI-------------LHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKA 120

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           D LVVG+ GL  +   LLGSV  +V   +   V +V 
Sbjct: 121 DLLVVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVH 157

>2z08_A Universal stress protein family; uncharacterized conserved protein, structural genomics, unknown function, NPPSFA; HET: ATP; 1.55A {Thermus thermophilus} SCOP: c.26.2.4 PDB: 1wjg_A* 2z09_A* 2z3v_A Length = 137

 Score = 94.9 bits (237), Expect = 5e-26
 Identities = 41/154 (26%), Positives = 64/154 (41%), Gaps = 20/154 (12%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           +T+ +  D S +++ A   A       G  +I++H   P  D+  +  FE+       L 
Sbjct: 3   KTILLAYDGSEHARRAAEVAKAEAEAHGARLIVVHAYEPVPDYLGEPFFEEA------LR 56

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLKLDTL 123
              E                 +L+      G     A +  G P E +  A    K D +
Sbjct: 57  RRLE-------------RAEGVLEEARALTGVPKEDALLLEGVPAEAILQAARAEKADLI 103

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           V+G+RGLGAL  + LGS S  VV  + CPV +V+
Sbjct: 104 VMGTRGLGALGSLFLGSQSQRVVAEAPCPVLLVR 137

>1mjh_A Protein (ATP-binding domain of protein MJ0577); hypothetical protein, structural genomics, functional assignment; HET: ATP; 1.70A {Methanocaldococcus jannaschii} SCOP: c.26.2.4 Length = 162

 Score = 93.5 bits (233), Expect = 4e-25
 Identities = 38/149 (25%), Positives = 60/149 (40%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
              D S  ++ AL+          + +IL+HV        R       G   +       
Sbjct: 10  YPTDFSETAEIALKHVKAFKTLKAEEVILLHVIDEREIKKRDIFSLLLGVAGLNKSVEEF 69

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR 128
            N  K          ++ +       G KV   +  G P E++    ED  +D +++GS 
Sbjct: 70  ENELKNKLTEEAKNKMENIKKELEDVGFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMGSH 129

Query: 129 GLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           G   LK +LLGSV+ +V+  S+ PV VVK
Sbjct: 130 GKTNLKEILLGSVTENVIKKSNKPVLVVK 158

>3s3t_A Nucleotide-binding protein, universal stress PROT family; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: ATP; 1.90A {Lactobacillus plantarum} Length = 146

 Score = 88.8 bits (221), Expect = 2e-23
 Identities = 29/150 (19%), Positives = 65/150 (43%), Gaps = 14/150 (9%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           V +D+S  ++AA   A +        +  ++V   +A             P++      E
Sbjct: 10  VPVDSSDAAQAAFTEAVNIAQRHQANLTALYVVDDSA------YHTPALDPVLSELLDAE 63

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCD-AVEDLKLDTLVVGS 127
              +K         +      ++ T    +  ++ +G P+  + D A +  ++D +V+G+
Sbjct: 64  AAHAKDA-------MRQRQQFVATTSAPNLKTEISYGIPKHTIEDYAKQHPEIDLIVLGA 116

Query: 128 RGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
            G  +  RV +GS +++VV ++ C V V++
Sbjct: 117 TGTNSPHRVAVGSTTSYVVDHAPCNVIVIR 146

>2dum_A Hypothetical protein PH0823; conserved hypothetical protein, putative universal protein A structural genomics, NPPSFA; 2.75A {Pyrococcus horikoshii} Length = 170

 Score = 88.9 bits (221), Expect = 4e-23
 Identities = 27/148 (18%), Positives = 58/148 (39%), Gaps = 5/148 (3%)

Query: 12  DNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINF 71
           D S  +  A+             +IL+HV     D    +   D  S      E    + 
Sbjct: 13  DFSEGAYRAVEVFEKRNKMEVGEVILLHV----IDEGTLEELMDGYSFFYDNAEIELKDI 68

Query: 72  SKQYGLTSNPEVLDILDTLSRT-KGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGL 130
            ++    ++ ++ +  + + R  +   V   + +G P +++    E+  +  +++ SRG 
Sbjct: 69  KEKLKEEASRKLQEKAEEVKRAFRAKNVRTIIRFGIPWDEIVKVAEEENVSLIILPSRGK 128

Query: 131 GALKRVLLGSVSNHVVTNSSCPVTVVKG 158
            +L    LGS    V+  +  PV ++K 
Sbjct: 129 LSLSHEFLGSTVMRVLRKTKKPVLIIKE 156

>3hgm_A Universal stress protein TEAD; rossman fold, signaling protein; HET: ATP; 1.90A {Halomonas elongata} Length = 147

 Score = 86.1 bits (214), Expect = 3e-22
 Identities = 33/151 (21%), Positives = 57/151 (37%), Gaps = 13/151 (8%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           V +D S  +  AL         +G  + ++ V   ++               +P +  ++
Sbjct: 7   VPVDGSKGAVKALEKGVGLQQLTGAELYILCVFKHHSLLEASLSMARPEQLDIPDDALKD 66

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAK---VVAKVYWGDPREKLCDAVEDLKLDTLVV 125
                 Y      E+     T +   G     V A V  G P   +       + D +V+
Sbjct: 67  ------YAT----EIAVQAKTRATELGVPADKVRAFVKGGRPSRTIVRFARKRECDLVVI 116

Query: 126 GSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
           G++G    K +LLGSV+  V  ++ CPV VV
Sbjct: 117 GAQGTNGDKSLLLGSVAQRVAGSAHCPVLVV 147

>3dlo_A Universal stress protein; unknown function, structural genomics, PSI-2, protein struct initiative, midwest center for structural genomics; HET: MSE; 1.97A {Archaeoglobus fulgidus} PDB: 3qtb_A* Length = 155

 Score = 86.2 bits (214), Expect = 3e-22
 Identities = 31/156 (19%), Positives = 61/156 (39%), Gaps = 28/156 (17%)

Query: 5   RTVGVGMD-NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPL 63
             + V +D  S  ++  LR+AA+     G  + ++H  P              G      
Sbjct: 25  MPIVVAVDKKSDRAERVLRFAAEEARLRGVPVYVVHSLP--------------GGGRTKD 70

Query: 64  EEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAK--VYWGDPREKLCDAVEDLKLD 121
           E+  E             E L    ++ R +GA+      V   +P + + D  +++   
Sbjct: 71  EDIIEA-----------KETLSWAVSIIRKEGAEGEEHLLVRGKEPPDDIVDFADEVDAI 119

Query: 122 TLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
            +V+G R      +++ GSV+  V+  ++ PV  +K
Sbjct: 120 AIVIGIRKRSPTGKLIFGSVARDVILKANKPVICIK 155

>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus} Length = 294

 Score = 84.7 bits (210), Expect = 1e-20
 Identities = 33/153 (21%), Positives = 57/153 (37%), Gaps = 34/153 (22%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
             V V  D S  +  AL +A   +  +G  + +IHV          ++ E+         
Sbjct: 171 DRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGDKTADLRVMEE--------- 221

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
                                    +   +G +V   +  G P + +    E++   T+ 
Sbjct: 222 -------------------------VIGAEGIEVHVHIESGTPHKAILAKREEINATTIF 256

Query: 125 VGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           +GSRG G++  ++LGS S  V+  S  PV V K
Sbjct: 257 MGSRGAGSVMTMILGSTSESVIRRSPVPVFVCK 289

>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus} Length = 294

 Score = 82.4 bits (204), Expect = 1e-19
 Identities = 39/162 (24%), Positives = 63/162 (38%), Gaps = 18/162 (11%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
             ++  + +  D S NS   L +  D      + I ++ V       T      D    +
Sbjct: 19  YFQSNAMLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLSTVSGGI-DIDHYI 77

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKG--AKVVAKVYWGDPREKLCDAVEDL 118
             + E  E             EVL  +       G  A+V+     GDP  ++  A E+ 
Sbjct: 78  DEMSEKAE-------------EVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEIIKASENY 124

Query: 119 KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP 160
               + +GSRG    K++LLGSVS  V+ +S  PV + K + 
Sbjct: 125 SF--IAMGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKHDM 164

>3tnj_A Universal stress protein (USP); structural genomics, PSI-biology, midwest center for structu genomics, MCSG, chaperone; HET: AMP; 2.00A {Nitrosomonas europaea} PDB: 2pfs_A* Length = 150

 Score = 81.5 bits (202), Expect = 2e-20
 Identities = 32/151 (21%), Positives = 53/151 (35%), Gaps = 15/151 (9%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           + +D S      ++   +     G  + LIHV                       +   +
Sbjct: 11  LAVDFSSEDSQVVQKVRNLASQIGARLSLIHVLDNIPMPDTPYGTAIPLDTETTYDAMLD 70

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAK-VYWGDPREKLCDAVEDLKLDTLVVGS 127
                             L  +  T G     + + WG+PRE++    E   +D +VVGS
Sbjct: 71  -------------VEKQKLSQIGNTLGIDPAHRWLVWGEPREEIIRIAEQENVDLIVVGS 117

Query: 128 RGLGALKRVLLGSVSNHVVTNSSCPVTVVKG 158
            G   L  +LLGS +N V+  + C V  V+ 
Sbjct: 118 HGRHGL-ALLLGSTANSVLHYAKCDVLAVRL 147

>1jmv_A USPA, universal stress protein A; chaperone; 1.85A {Haemophilus influenzae} SCOP: c.26.2.4 Length = 141

 Score = 77.3 bits (191), Expect = 5e-19
 Identities = 30/154 (19%), Positives = 49/154 (31%), Gaps = 20/154 (12%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + + V +D S  S   L+ A          + +IHV    +D     +  +  S    + 
Sbjct: 3   KHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRIS 62

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAK-VYWGDPREKLCDAVEDLKLDTL 123
                            E    L  L+ +    +  K    GD  + L DA+E   +D L
Sbjct: 63  T----------------ETQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLL 106

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           V G           L S +  V+      + VV 
Sbjct: 107 VTGHHQDFWS---KLMSSTRQVMNTIKIDMLVVP 137

>3cis_A Uncharacterized protein; alpha/beta hydrolase, ATP, universal stress protein, unknown function; HET: ATP; 2.90A {Mycobacterium tuberculosis} PDB: 2jax_A* Length = 309

 Score = 80.1 bits (198), Expect = 8e-19
 Identities = 37/171 (21%), Positives = 64/171 (37%), Gaps = 25/171 (14%)

Query: 1   MSKARTVG---VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTG 57
           MS   +     VG+D+SP ++ A+RWAA +       + L+H   P  +           
Sbjct: 13  MSSGNSSLGIIVGIDDSPAAQVAVRWAARDAELRKIPLTLVHAVSP--EVATWLEVPLPP 70

Query: 58  SPLVPLEEFREINFSKQYGLTSNPEVLD-----ILDTLSRTKGAKVVAKVYWGDPREKLC 112
             L   ++                 ++D     +     R     V +++        L 
Sbjct: 71  GVLRWQQDHGR-------------HLIDDALKVVEQASLRAGPPTVHSEIVPAAAVPTLV 117

Query: 113 DAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNPVSA 163
           D  +D  L  +VVG  G G     LLGSVS+ ++ ++ CPV ++       
Sbjct: 118 DMSKDAVL--MVVGCLGSGRWPGRLLGSVSSGLLRHAHCPVVIIHDEDSVM 166

>3cis_A Uncharacterized protein; alpha/beta hydrolase, ATP, universal stress protein, unknown function; HET: ATP; 2.90A {Mycobacterium tuberculosis} PDB: 2jax_A* Length = 309

 Score = 69.7 bits (171), Expect = 5e-15
 Identities = 36/158 (22%), Positives = 52/158 (32%), Gaps = 23/158 (14%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
             +   V VG+D S  S+ A   A D        ++ +H            + E  G   
Sbjct: 168 HPQQAPVLVGVDGSSASELATAIAFDEASRRNVDLVALHAWSDVD------VSEWPGIDW 221

Query: 61  VPLEEFREINFSKQYGLTSNPEVLD-ILDTL-SRTKGAKVVAKVYWGDPREKLCDAVEDL 118
              +   E             +VL   L     R     +   V    P  +L    E+ 
Sbjct: 222 PATQSMAE-------------QVLAERLAGWQERYPNVAITRVVVRDQPARQLVQRSEEA 268

Query: 119 KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
               +VVGSRG G    +L+GSV   V   +  PV V 
Sbjct: 269 --QLVVVGSRGRGGYAGMLVGSVGETVAQLARTPVIVA 304

>3fg9_A Protein of universal stress protein USPA family; APC60691, nucleotide- binding, lactobacillus plantarum WCFS1, structural genomics PSI-2; 1.47A {Lactobacillus plantarum} Length = 156

 Score = 74.3 bits (183), Expect = 9e-18
 Identities = 26/154 (16%), Positives = 55/154 (35%), Gaps = 20/154 (12%)

Query: 7   VGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEF 66
           + V  D++ +S+ A R+A     D    + +  V      +    L       +    + 
Sbjct: 20  LTVDEDDNTSSERAFRYATTLAHDYDVPLGICSVLESEDINIFDSLTPSK---IQAKRKH 76

Query: 67  REINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYW--GDPREKLCDAV-EDLKLDTL 123
            E             +V+     L+  +G   V  + +  GD  + + + V  + K D L
Sbjct: 77  VE-------------DVVAEYVQLAEQRGVNQVEPLVYEGGDVDDVILEQVIPEFKPDLL 123

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           V G+       + + G++   +   +   V VV+
Sbjct: 124 VTGADTEFPHSK-IAGAIGPRLARKAPISVIVVR 156

>3fdx_A Putative filament protein / universal stress PROT; structural genomics, APC60640.1, universal protein F, PSI-2; HET: MSE ATP; 1.58A {Klebsiella pneumoniae subsp} PDB: 3fh0_A* Length = 143

 Score = 73.4 bits (181), Expect = 2e-17
 Identities = 28/159 (17%), Positives = 56/159 (35%), Gaps = 21/159 (13%)

Query: 4   ARTVGVGMDNSPN--SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLV 61
           +  + V +D S    ++  +             +  + V P    +    L     + L 
Sbjct: 1   SNAILVPIDISDKEFTERIISHVESEARIDDAEVHFLTVIPSLPYYA--SLGMAYTAELP 58

Query: 62  PLEEFREINFSKQYGLTSNPEVLDILDTLS---RTKGAKVVAKVYWGDPREKLCDAVEDL 118
            ++E RE                  L  ++        ++   V  G P++K+    + L
Sbjct: 59  GMDELRE-------------GSETQLKEIAKKFSIPEDRMHFHVAEGSPKDKILALAKSL 105

Query: 119 KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
             D +++ S     +   LLGS +  VV ++ C V VV+
Sbjct: 106 PADLVIIASHRPD-ITTYLLGSNAAAVVRHAECSVLVVR 143

>3ab8_A Putative uncharacterized protein TTHA0350; tandem-type universal stress protein, unknown function; HET: ATP; 1.70A {Thermus thermophilus} PDB: 3ab7_A* Length = 268

 Score = 72.5 bits (178), Expect = 3e-16
 Identities = 33/153 (21%), Positives = 53/153 (34%), Gaps = 7/153 (4%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           +  D SP ++ A   A          + ++ V              D G+  VP+   R 
Sbjct: 5   LATDGSPQARGAEALAEWLAYKLSAPLTVLFVVDTRLARI--PELLDFGALTVPVPVLRT 62

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR 128
               ++        VL+ +   +   G  V A +  G P E +         D LV+G  
Sbjct: 63  E--LERALALRGEAVLERVRQSALAAGVAVEAVLEEGVPHEAILRRARAA--DLLVLGRS 118

Query: 129 GLGA-LKRVLLGSVSNHVVTNSSCPVTVVKGNP 160
           G         LGS ++ V+  S  PV +  G P
Sbjct: 119 GEAHGDGFGGLGSTADRVLRASPVPVLLAPGEP 151

>3ab8_A Putative uncharacterized protein TTHA0350; tandem-type universal stress protein, unknown function; HET: ATP; 1.70A {Thermus thermophilus} PDB: 3ab7_A* Length = 268

 Score = 62.5 bits (152), Expect = 2e-12
 Identities = 26/149 (17%), Positives = 48/149 (32%), Gaps = 39/149 (26%)

Query: 9   VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE 68
           +G D S ++  AL   A      G  + ++ V    A                   E   
Sbjct: 159 LGYDASESAVRALHALAPLARALGLGVRVVSVHEDPARAEA------------WALEAEA 206

Query: 69  INFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR 128
             + + +G+ ++  VL                    GD  + L         D L +G+ 
Sbjct: 207 --YLRDHGVEASALVLG-------------------GDAADHLLRLQGPG--DLLALGAP 243

Query: 129 GLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
                +R++ GS +  V+ N+  PV   +
Sbjct: 244 V----RRLVFGSTAERVIRNAQGPVLTAR 268

>3olq_A Universal stress protein E; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: UNL; 1.82A {Proteus mirabilis} Length = 319

 Score = 65.0 bits (158), Expect = 3e-13
 Identities = 15/77 (19%), Positives = 31/77 (40%), Gaps = 1/77 (1%)

Query: 82  EVLDILDTLSRTKG-AKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGS 140
           + L  +  L +     +    V  G P + +    E+L    +V+G  G   L    LG+
Sbjct: 228 QHLIAMKELRQKFSIPEEKTHVKEGLPEQVIPQVCEELNAGIVVLGILGRTGLSAAFLGN 287

Query: 141 VSNHVVTNSSCPVTVVK 157
            +  ++ +  C +  +K
Sbjct: 288 TAEQLIDHIKCDLLAIK 304

>3olq_A Universal stress protein E; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: UNL; 1.82A {Proteus mirabilis} Length = 319

 Score = 65.0 bits (158), Expect = 3e-13
 Identities = 26/160 (16%), Positives = 53/160 (33%), Gaps = 17/160 (10%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAAD--NLIDSGDLIILIHVQPPNADHTRKQLFEDTGS 58
           M K + + V +D + + + ALR A           +   + V   + D T     ++  +
Sbjct: 4   MEKYQNLLVVIDPNQDDQPALRRAVYIVQRNGG-RIKAFLPVYDLSYDMTTLLSPDERNA 62

Query: 59  PLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYW-GDPREKLCDAVED 117
               +   +                +          G ++  KV W   P E + + V  
Sbjct: 63  MRKGVINQKT-------------AWIKQQARYYLEAGIQIDIKVIWHNRPYEAIIEEVIT 109

Query: 118 LKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
            K D L+  +     L  ++   +   ++     PV +VK
Sbjct: 110 DKHDLLIKMAHQHDKLGSLIFTPLDWQLLRKCPAPVWMVK 149

>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa} Length = 290

 Score = 63.1 bits (153), Expect = 1e-12
 Identities = 13/77 (16%), Positives = 25/77 (32%), Gaps = 1/77 (1%)

Query: 82  EVLDILDTLSRTKG-AKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGS 140
              +   T     G +     +  G     +    + L     V+G+     L   L+G+
Sbjct: 199 RYREACRTFQAEYGFSDEQLHIEEGPADVLIPRTAQKLDAVVTVIGTVARTGLSGALIGN 258

Query: 141 VSNHVVTNSSCPVTVVK 157
            +  V+      V V+K
Sbjct: 259 TAEVVLDTLESDVLVLK 275

>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa} Length = 290

 Score = 57.3 bits (138), Expect = 1e-10
 Identities = 20/158 (12%), Positives = 41/158 (25%), Gaps = 35/158 (22%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           M   R++ V ++       AL+ A      +   + L+  +             D    L
Sbjct: 4   MQAIRSILVVIEPDQLEGLALKRAQLIAGVTQSHLHLLVCEKR---RDHSAALNDLAQEL 60

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLK 119
                                          R +G  V     W     + +    +   
Sbjct: 61  -------------------------------REEGYSVSTNQAWKDSLHQTIIAEQQAEG 89

Query: 120 LDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
              ++        LK+ +L      ++  + CPV + K
Sbjct: 90  CGLIIKQHFPDNPLKKAILTPDDWKLLRFAPCPVLMTK 127

>1q77_A Hypothetical protein AQ_178; structural genomics, universal stress protein, PSI, protein structure initiative; 2.70A {Aquifex aeolicus} SCOP: c.26.2.4 Length = 138

 Score = 44.0 bits (103), Expect = 2e-06
 Identities = 25/143 (17%), Positives = 54/143 (37%), Gaps = 11/143 (7%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + + V  D   + + A+ +A +     G  + ++ V     +   ++     G P     
Sbjct: 5   KVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNL--ERANVTFGLP--FPP 60

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
           E +E   SK+       EV + L   +   G +       G   E++   VE    + +V
Sbjct: 61  EIKE--ESKKRIERRLREVWEKLTGSTEIPGVEYRI----GPLSEEVKKFVEGKGYELVV 114

Query: 125 VGSRGLGALKRVLLG-SVSNHVV 146
                   L +V+ G ++++ +V
Sbjct: 115 WACYPSAYLCKVIDGLNLASLIV 137

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	164
3tnj_A	150	Universal stress protein (USP); structural genomic	99.97
3s3t_A	146	Nucleotide-binding protein, universal stress PROT	99.97
1mjh_A	162	Protein (ATP-binding domain of protein MJ0577); hy	99.96
2dum_A	170	Hypothetical protein PH0823; conserved hypothetica	99.96
3hgm_A	147	Universal stress protein TEAD; rossman fold, signa	99.96
3idf_A	138	USP-like protein; universal, stress, PSI, MCSG, st	99.96
3fg9_A	156	Protein of universal stress protein USPA family; A	99.96
1tq8_A	163	Hypothetical protein RV1636; MTCY01B2.28, structur	99.96
3dlo_A	155	Universal stress protein; unknown function, struct	99.96
2z08_A	137	Universal stress protein family; uncharacterized c	99.95
2gm3_A	175	Unknown protein; AT3G01520, putative ethylene-resp	99.94
3olq_A	319	Universal stress protein E; structural genomics, P	99.94
3fdx_A	143	Putative filament protein / universal stress PROT;	99.94
1jmv_A	141	USPA, universal stress protein A; chaperone; 1.85A	99.94
3mt0_A	290	Uncharacterized protein PA1789; structural genomic	99.93
3loq_A	294	Universal stress protein; structural genomics, PSI	99.92
3mt0_A	290	Uncharacterized protein PA1789; structural genomic	99.91
1q77_A	138	Hypothetical protein AQ_178; structural genomics,	99.91
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	99.91
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	99.9
3loq_A	294	Universal stress protein; structural genomics, PSI	99.9
3olq_A	319	Universal stress protein E; structural genomics, P	99.89
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	99.88
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	99.85
2iel_A	138	Hypothetical protein TT0030; TT0030,thermus thermo	97.56
3a2k_A	464	TRNA(Ile)-lysidine synthase; ligase, pseudo-knot,	96.59
1wy5_A	317	TILS, hypothetical UPF0072 protein AQ_1887; N-type	96.54
1zun_A	325	Sulfate adenylyltransferase subunit 2; beta barrel	95.4
3ih5_A	217	Electron transfer flavoprotein alpha-subunit; alph	95.37
3g40_A	294	Na-K-CL cotransporter; alpha/beta fold 10-stranded	94.97
4b4k_A	181	N5-carboxyaminoimidazole ribonucleotide mutase; is	94.95
2xry_A	482	Deoxyribodipyrimidine photolyase; DNA damage, DNA	94.85
1o97_C	264	Electron transferring flavoprotein beta-subunit; F	94.36
1k92_A	455	Argininosuccinate synthase, argininosuccinate SY;	94.16
1efp_B	252	ETF, protein (electron transfer flavoprotein); ele	94.11
3k32_A	203	Uncharacterized protein MJ0690; predicted subunit	94.11
3oow_A	166	Phosphoribosylaminoimidazole carboxylase,catalyic;	94.09
2nz2_A	413	Argininosuccinate synthase; amino-acid biosynthesi	93.67
4grd_A	173	N5-CAIR mutase, phosphoribosylaminoimidazole carbo	93.67
1ni5_A	433	Putative cell cycle protein MESJ; structural genom	93.65
2ywx_A	157	Phosphoribosylaminoimidazole carboxylase catalyti;	93.57
1efv_B	255	Electron transfer flavoprotein; electron transport	93.57
3kcq_A	215	Phosphoribosylglycinamide formyltransferase; struc	93.46
1sur_A	215	PAPS reductase; assimilatory sulfate reduction, 3-	93.43
1xmp_A	170	PURE, phosphoribosylaminoimidazole carboxylase; pu	93.32
3kuu_A	174	Phosphoribosylaminoimidazole carboxylase catalyti	93.03
3trh_A	169	Phosphoribosylaminoimidazole carboxylase carboxylt	92.94
3g40_A	294	Na-K-CL cotransporter; alpha/beta fold 10-stranded	92.77
3bl5_A	219	Queuosine biosynthesis protein QUEC; PREQ1 biosynt	92.61
3umv_A	506	Deoxyribodipyrimidine photo-lyase; CPD cyclobutane	92.36
3lp6_A	174	Phosphoribosylaminoimidazole carboxylase catalyti;	92.36
3zqu_A	209	Probable aromatic acid decarboxylase; lyase; HET:	92.14
1u11_A	182	PURE (N5-carboxyaminoimidazole ribonucleotide MUT;	91.94
2hma_A	376	Probable tRNA (5-methylaminomethyl-2-thiouridylat	91.86
3ors_A	163	N5-carboxyaminoimidazole ribonucleotide mutase; is	91.75
1o4v_A	183	Phosphoribosylaminoimidazole mutase PURE; structur	91.53
2oq2_A	261	Phosphoadenosine phosphosulfate reductase; sulfate	91.08
3rjz_A	237	N-type ATP pyrophosphatase superfamily; structural	91.0
2ywb_A	503	GMP synthase [glutamine-hydrolyzing]; GMP syntheta	90.47
2wsi_A	306	FAD synthetase; transferase, nucleotidyltransferas	90.45
3rg8_A	159	Phosphoribosylaminoimidazole carboxylase, PURE PR;	90.37
2wq7_A	543	RE11660P; lyase-DNA complex, DNA repair, DNA lesio	90.3
3tqi_A	527	GMP synthase [glutamine-hydrolyzing]; ligase; 2.84	89.98
1iv0_A	98	Hypothetical protein; rnaseh-like, YQGF, structura	89.86
3p9x_A	211	Phosphoribosylglycinamide formyltransferase; struc	89.39
2dpl_A	308	GMP synthetase, GMP synthase [glutamine-hydrolyzin	89.04
2c5s_A	413	THII, probable thiamine biosynthesis protein THII;	88.39
2der_A	380	TRNA-specific 2-thiouridylase MNMA; protein-RNA co	87.98
3da8_A	215	Probable 5'-phosphoribosylglycinamide formyltransf	87.42
1np7_A	489	DNA photolyase; protein with FAD cofactor; HET: DN	87.29
1kor_A	400	Argininosuccinate synthetase; ligase, riken struct	86.69
1vbk_A	307	Hypothetical protein PH1313; structural genomics,	86.01
2o8v_A	252	Phosphoadenosine phosphosulfate reductase; disulfi	86.01
1g63_A	181	Epidermin modifying enzyme EPID; alpha, beta prote	85.87
2pg3_A	232	Queuosine biosynthesis protein QUEC; YP_049261.1,	85.56
3nbm_A	108	PTS system, lactose-specific IIBC components; PTS_	84.32
2l69_A	134	Rossmann 2X3 fold protein; structural genomics, no	84.25
4ds3_A	209	Phosphoribosylglycinamide formyltransferase; struc	84.2
2ejb_A	189	Probable aromatic acid decarboxylase; phenylacryli	84.08
3fy4_A	537	6-4 photolyase; DNA repair, clock cryptochrome; HE	83.97
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	83.68
1owl_A	484	Photolyase, deoxyribodipyrimidine photolyase; DNA	83.32
3tvs_A	538	Cryptochrome-1; circadian clock light entrainment,	82.42
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	82.38
3tqr_A	215	Phosphoribosylglycinamide formyltransferase; purin	80.98
2ywr_A	216	Phosphoribosylglycinamide formyltransferase; rossm	80.88
3r7f_A	304	Aspartate carbamoyltransferase; aspartate transcar	80.71

>3tnj_A Universal stress protein (USP); structural genomics, PSI-biology, midwest center for structu genomics, MCSG, chaperone; HET: AMP; 2.00A {Nitrosomonas europaea} PDB: 2pfs_A*

Probab=99.97  E-value=1.4e-29  Score=166.02  Aligned_cols=146  Identities=24%  Similarity=0.289  Sum_probs=102.3

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      ||++++|||++|+|+.+..++++|+.+|+..+++|+++||.++.......    ..+...........         +..
T Consensus         3 m~~~~~ILv~vD~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~----~~~~~~~~~~~~~~---------~~~   69 (150)
T 3tnj_A            3 MSVYHHILLAVDFSSEDSQVVQKVRNLASQIGARLSLIHVLDNIPMPDTP----YGTAIPLDTETTYD---------AML   69 (150)
T ss_dssp             -CCCSEEEEECCCSTTHHHHHHHHHHHHHHHTCEEEEEEEEC------------CTTCCCSSSCCCHH---------HHH
T ss_pred             CCccceEEEEeCCCHHHHHHHHHHHHHHhhcCCEEEEEEEEcCccccccc----cccccCcCHHHHHH---------HHH
Confidence            88999999999999999999999999999999999999999875431100    00000000000100         112


Q ss_pred             hhHHHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ++..+.+.+.+...|+. +++.+..|++.++|++++++.++|+||||+++++.+. +++||++++|+++++|||++||++
T Consensus        70 ~~~~~~l~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~~~~~~-~~~Gs~~~~vl~~~~~pVlvv~~~  148 (150)
T 3tnj_A           70 DVEKQKLSQIGNTLGIDPAHRWLVWGEPREEIIRIAEQENVDLIVVGSHGRHGLA-LLLGSTANSVLHYAKCDVLAVRLR  148 (150)
T ss_dssp             HHHHHHHHHHHHHHTCCGGGEEEEESCHHHHHHHHHHHTTCSEEEEEEC---------CCCHHHHHHHHCSSEEEEEECC
T ss_pred             HHHHHHHHHHHHHcCCCcceEEEecCCHHHHHHHHHHHcCCCEEEEecCCCCCcC-eEecchHHHHHHhCCCCEEEEeCC
Confidence            34455555556666776 4677889999999999999999999999999999888 999999999999999999999975


Q ss_pred             C
Q 031202          160 P  160 (164)
Q Consensus       160 ~  160 (164)
                      .
T Consensus       149 ~  149 (150)
T 3tnj_A          149 D  149 (150)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3s3t_A Nucleotide-binding protein, universal stress PROT family; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: ATP; 1.90A {Lactobacillus plantarum} SCOP: c.26.2.0

Probab=99.97  E-value=8.7e-30  Score=166.32  Aligned_cols=142  Identities=21%  Similarity=0.295  Sum_probs=117.2

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      |++++|||++|+|+.+..++++|+.+|+..+++|+++||.+........            .....  ....+...+..+
T Consensus         3 ~~~~~ILv~~D~s~~s~~al~~A~~la~~~~a~l~ll~v~~~~~~~~~~------------~~~~~--~~~~~~~~~~~~   68 (146)
T 3s3t_A            3 ARYTNILVPVDSSDAAQAAFTEAVNIAQRHQANLTALYVVDDSAYHTPA------------LDPVL--SELLDAEAAHAK   68 (146)
T ss_dssp             CCCCEEEEECCSSHHHHHHHHHHHHHHHHHTCEEEEEEEEECCCCCCGG------------GHHHH--HHHHHHHHHHHH
T ss_pred             CccceEEEEcCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCccccccc------------ccccc--HHHHHHHHHHHH
Confidence            4689999999999999999999999999999999999999876432100            00010  111222223456


Q ss_pred             hHHHHHHHHhhhcCc-eEEEEEeeCChhhHHHH-HHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGA-KVVAKVYWGDPREKLCD-AVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~-~~~~~v~~g~~~~~I~~-~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      +.++.+.+.+...|+ ++++.+..|++.++|++ ++++.++|+||||+++++.+.++++||++++|+++++||||+||
T Consensus        69 ~~l~~~~~~~~~~g~~~~~~~~~~g~~~~~I~~~~a~~~~~dliV~G~~~~~~~~~~~~Gs~~~~vl~~~~~pVlvV~  146 (146)
T 3s3t_A           69 DAMRQRQQFVATTSAPNLKTEISYGIPKHTIEDYAKQHPEIDLIVLGATGTNSPHRVAVGSTTSYVVDHAPCNVIVIR  146 (146)
T ss_dssp             HHHHHHHHHHTTSSCCCCEEEEEEECHHHHHHHHHHHSTTCCEEEEESCCSSCTTTCSSCHHHHHHHHHCSSEEEEEC
T ss_pred             HHHHHHHHHHHhcCCcceEEEEecCChHHHHHHHHHhhcCCCEEEECCCCCCCcceEEEcchHHHHhccCCCCEEEeC
Confidence            667777777888899 99999999999999999 99999999999999999999999999999999999999999997

>1mjh_A Protein (ATP-binding domain of protein MJ0577); hypothetical protein, structural genomics, functional assignment; HET: ATP; 1.70A {Methanocaldococcus jannaschii} SCOP: c.26.2.4

Probab=99.96  E-value=3.2e-29  Score=166.39  Aligned_cols=157  Identities=25%  Similarity=0.228  Sum_probs=115.1

Q ss_pred             CC-CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcc-cccccccCCCCCCChhh--HHHhhhhhhhc
Q 031202            1 MS-KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHT-RKQLFEDTGSPLVPLEE--FREINFSKQYG   76 (164)
Q Consensus         1 m~-~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~   76 (164)
                      |+ ++++||||+|+|+.+..++++|+.+|+..+++|+++||.++..... ....+...+....+...  ..   ...+..
T Consensus         1 M~~~~~~ILv~vD~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~   77 (162)
T 1mjh_A            1 MSVMYKKILYPTDFSETAEIALKHVKAFKTLKAEEVILLHVIDEREIKKRDIFSLLLGVAGLNKSVEEFEN---ELKNKL   77 (162)
T ss_dssp             --CCCCEEEEECCSCHHHHHHHHHHHHTCCSSCCEEEEEEEEEGGGTC-----------------CHHHHH---HHHHHH
T ss_pred             CccccceEEEEeCCCHHHHHHHHHHHHHHhhcCCeEEEEEEecCccccccccccccccccccccchhhhHH---HHHHHH
Confidence            55 6899999999999999999999999999999999999987541000 00000000000001000  00   011111


Q ss_pred             CCCChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           77 LTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      .+..++.++.+.+.+...|+++++.+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++|||++|
T Consensus        78 ~~~~~~~l~~~~~~~~~~g~~~~~~v~~G~~~~~I~~~a~~~~~dlIV~G~~g~~~~~~~~~GSv~~~vl~~~~~pVlvv  157 (162)
T 1mjh_A           78 TEEAKNKMENIKKELEDVGFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMGSHGKTNLKEILLGSVTENVIKKSNKPVLVV  157 (162)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTTCSEEEEESCCSSCCTTCSSCHHHHHHHHHCCSCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCceEEEEcCCCHHHHHHHHHHHcCCCEEEEcCCCCCCccceEecchHHHHHHhCCCCEEEE
Confidence            12345566677777777899999989999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCC
Q 031202          157 KGNP  160 (164)
Q Consensus       157 ~~~~  160 (164)
                      |++.
T Consensus       158 ~~~~  161 (162)
T 1mjh_A          158 KRKN  161 (162)
T ss_dssp             CCCC
T ss_pred             eCCC
Confidence            8753

>2dum_A Hypothetical protein PH0823; conserved hypothetical protein, putative universal protein A structural genomics, NPPSFA; 2.75A {Pyrococcus horikoshii}

Probab=99.96  E-value=9.6e-29  Score=165.35  Aligned_cols=155  Identities=16%  Similarity=0.131  Sum_probs=112.9

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccc-cCCCCCCChhhHHHhhhhhhhcCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFE-DTGSPLVPLEEFREINFSKQYGLTS   79 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   79 (164)
                      |+++++|||++|+++.+..++++|+.+|+..+++|+++||.+..........+. ....+......+.      +...+.
T Consensus         2 ~~m~~~ILv~vD~s~~s~~al~~A~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~   75 (170)
T 2dum_A            2 IFMFRKVLFPTDFSEGAYRAVEVFEKRNKMEVGEVILLHVIDEGTLEELMDGYSFFYDNAEIELKDIK------EKLKEE   75 (170)
T ss_dssp             --CCSEEEEECCSSHHHHHHHHHHHHHCCSCCSEEEEEEEEETTGGGCCC------------CCTTSH------HHHHHH
T ss_pred             ccccceEEEEecCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCccccccccccccccccccccHHHHH------HHHHHH
Confidence            347899999999999999999999999999999999999987643211000000 0000000000110      011122


Q ss_pred             ChhHHHHHHHHhhhcCceEEE--EEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           80 NPEVLDILDTLSRTKGAKVVA--KVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~--~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      .++.++.+.+.+...|+++++  .+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++||||+||
T Consensus        76 ~~~~l~~~~~~~~~~g~~~~~~~~~~~g~~~~~I~~~a~~~~~DlIV~G~~g~~~~~~~~~Gsv~~~vl~~~~~PVlvv~  155 (170)
T 2dum_A           76 ASRKLQEKAEEVKRAFRAKNVRTIIRFGIPWDEIVKVAEEENVSLIILPSRGKLSLSHEFLGSTVMRVLRKTKKPVLIIK  155 (170)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEEEEEEEEECHHHHHHHHHHHTTCSEEEEESCCCCC--TTCCCHHHHHHHHHCSSCEEEEC
T ss_pred             HHHHHHHHHHHHHHcCCceeeeeEEecCChHHHHHHHHHHcCCCEEEECCCCCCccccceechHHHHHHHhCCCCEEEEc
Confidence            345566666666677888887  888999999999999999999999999999988889999999999999999999999


Q ss_pred             CCCC
Q 031202          158 GNPV  161 (164)
Q Consensus       158 ~~~~  161 (164)
                      ....
T Consensus       156 ~~~~  159 (170)
T 2dum_A          156 EVDE  159 (170)
T ss_dssp             CCCC
T ss_pred             cCCc
Confidence            7653

>3hgm_A Universal stress protein TEAD; rossman fold, signaling protein; HET: ATP; 1.90A {Halomonas elongata} SCOP: c.26.2.0

Probab=99.96  E-value=7.4e-29  Score=161.99  Aligned_cols=144  Identities=22%  Similarity=0.226  Sum_probs=113.5

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      |+++|||++|+|+.+..++++|+.+|+..+++|+++|+.+..........+       ......   +...+..++..++
T Consensus         1 M~~~ILv~vD~s~~s~~al~~A~~la~~~~a~l~ll~v~~~~~~~~~~~~~-------~~~~~~---~~~~~~~~~~~~~   70 (147)
T 3hgm_A            1 MFNRIMVPVDGSKGAVKALEKGVGLQQLTGAELYILCVFKHHSLLEASLSM-------ARPEQL---DIPDDALKDYATE   70 (147)
T ss_dssp             CCSEEEEECCSBHHHHHHHHHHHHHHHHHCCEEEEEEEECCHHHHHHTBSS-------CCCGGG---CCCTTHHHHHHHH
T ss_pred             CCceEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCcccccccccc-------cChhhh---hhHHHHHHHHHHH
Confidence            489999999999999999999999999999999999999875311100000       000000   0001111123456


Q ss_pred             HHHHHHHHhhhcCceE---EEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           83 VLDILDTLSRTKGAKV---VAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~---~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      .++.+.+.+...|+++   ++.+..|++.++|++++++.++|+||||+++++.+.++++||++++|+++++||||+|
T Consensus        71 ~l~~~~~~~~~~g~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~~~~~~~~~~Gs~~~~vl~~~~~pVlvV  147 (147)
T 3hgm_A           71 IAVQAKTRATELGVPADKVRAFVKGGRPSRTIVRFARKRECDLVVIGAQGTNGDKSLLLGSVAQRVAGSAHCPVLVV  147 (147)
T ss_dssp             HHHHHHHHHHHTTCCGGGEEEEEEESCHHHHHHHHHHHTTCSEEEECSSCTTCCSCCCCCHHHHHHHHHCSSCEEEC
T ss_pred             HHHHHHHHHHhcCCCccceEEEEecCCHHHHHHHHHHHhCCCEEEEeCCCCccccceeeccHHHHHHhhCCCCEEEC
Confidence            6777777888889888   8889999999999999999999999999999999999999999999999999999986

>3idf_A USP-like protein; universal, stress, PSI, MCSG, structural genomics, midwest center for structural genomics structure initiative; 2.00A {Wolinella succinogenes}

Probab=99.96  E-value=2.4e-28  Score=158.12  Aligned_cols=136  Identities=18%  Similarity=0.260  Sum_probs=112.3

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHh-ccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcC-CCCh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNL-IDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGL-TSNP   81 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la-~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~   81 (164)
                      |++|||++|+|+.+..++++|+.+| +..+++|+++||.++......              ...... ...+..+ +..+
T Consensus         1 ~~~ILv~~D~s~~s~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~--------------~~~~~~-~~~~~~~~~~~~   65 (138)
T 3idf_A            1 MKKLLFAIDDTEACERAAQYILDMFGKDADCTLTLIHVKPEFMLYGE--------------AVLAAY-DEIEMKEEEKAK   65 (138)
T ss_dssp             CEEEEEECCSSHHHHHHHHHHHHHHTTCTTEEEEEEEEECCCCCCHH--------------HHHHHH-HHHHHHHHHHHH
T ss_pred             CceEEEEeCCCHHHHHHHHHHHHHhccCCCCEEEEEEEecCCCcccc--------------cccCcH-HHHHHHHHHHHH
Confidence            5899999999999999999999999 999999999999988643210              000010 1111122 3456


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      +.++.+.+.+...|+++++.+..|++.++|+++++  ++|+||||+++++++.+++ ||++++|+++++||||+||
T Consensus        66 ~~l~~~~~~~~~~g~~~~~~v~~g~~~~~I~~~a~--~~dliV~G~~~~~~~~~~~-Gs~~~~vl~~~~~pVlvv~  138 (138)
T 3idf_A           66 LLTQKFSTFFTEKGINPFVVIKEGEPVEMVLEEAK--DYNLLIIGSSENSFLNKIF-ASHQDDFIQKAPIPVLIVK  138 (138)
T ss_dssp             HHHHHHHHHHHTTTCCCEEEEEESCHHHHHHHHHT--TCSEEEEECCTTSTTSSCC-CCTTCHHHHHCSSCEEEEC
T ss_pred             HHHHHHHHHHHHCCCCeEEEEecCChHHHHHHHHh--cCCEEEEeCCCcchHHHHh-CcHHHHHHhcCCCCEEEeC
Confidence            67777788888889999999999999999999999  8999999999999998888 9999999999999999997

>3fg9_A Protein of universal stress protein USPA family; APC60691, nucleotide- binding, lactobacillus plantarum WCFS1, structural genomics PSI-2; 1.47A {Lactobacillus plantarum}

Probab=99.96  E-value=7.8e-29  Score=163.62  Aligned_cols=140  Identities=19%  Similarity=0.184  Sum_probs=113.7

Q ss_pred             CCCCcEEEEEec--CChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCC
Q 031202            1 MSKARTVGVGMD--NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLT   78 (164)
Q Consensus         1 m~~~~~ILv~~d--~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (164)
                      |+++++||||+|  +|+.+..++++|+.+|+..+++|+++||.+......       .  .. .....      .+...+
T Consensus        12 ~~~~~~ILv~vD~~~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~-------~--~~-~~~~~------~~~~~~   75 (156)
T 3fg9_A           12 PLVYRRILLTVDEDDNTSSERAFRYATTLAHDYDVPLGICSVLESEDINI-------F--DS-LTPSK------IQAKRK   75 (156)
T ss_dssp             CCCCC-EEEECCSCCCHHHHHHHHHHHHHHHHHTCCEEEEEEECCCCTTC-------C--CS-SHHHH------HHHHHH
T ss_pred             cccCceEEEEECCCCCHHHHHHHHHHHHHHHhcCCEEEEEEEEeCCCccc-------c--cc-CCHHH------HHHHHH
Confidence            578999999999  999999999999999999999999999998764321       0  00 11111      111122


Q ss_pred             CChhHHHHHHHHhhhcCc-eEEEEEee-CChhhHHHHH-HHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEE
Q 031202           79 SNPEVLDILDTLSRTKGA-KVVAKVYW-GDPREKLCDA-VEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTV  155 (164)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~-~~~~~v~~-g~~~~~I~~~-a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVli  155 (164)
                      ..++.++.+.+.+...|+ .+++.+.. |++.++|+++ +++.++|+||||+++++++. .++||++++|+++++||||+
T Consensus        76 ~~~~~l~~~~~~~~~~g~~~~~~~v~~~g~~~~~I~~~~a~~~~~DlIV~G~~g~~~~~-~~~Gs~~~~vl~~a~~PVlv  154 (156)
T 3fg9_A           76 HVEDVVAEYVQLAEQRGVNQVEPLVYEGGDVDDVILEQVIPEFKPDLLVTGADTEFPHS-KIAGAIGPRLARKAPISVIV  154 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCSSEEEEEEECSCHHHHHHHTHHHHHCCSEEEEETTCCCTTS-SSCSCHHHHHHHHCSSEEEE
T ss_pred             HHHHHHHHHHHHHHHcCCCceEEEEEeCCCHHHHHHHHHHHhcCCCEEEECCCCCCccc-eeecchHHHHHHhCCCCEEE
Confidence            345667777777888898 58998999 9999999999 99999999999999999886 58999999999999999999


Q ss_pred             Ee
Q 031202          156 VK  157 (164)
Q Consensus       156 v~  157 (164)
                      ||
T Consensus       155 V~  156 (156)
T 3fg9_A          155 VR  156 (156)
T ss_dssp             EC
T ss_pred             eC
Confidence            96

>1tq8_A Hypothetical protein RV1636; MTCY01B2.28, structural target, NYSGXRC, PSI, protein structure initiative; 2.40A {Mycobacterium tuberculosis} SCOP: c.26.2.4

Probab=99.96  E-value=3.1e-28  Score=162.00  Aligned_cols=143  Identities=28%  Similarity=0.312  Sum_probs=111.8

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEE--EEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCC
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILI--HVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTS   79 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll--~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (164)
                      .++++||||+|+|+.+..++++|+.+|+ .+++|+++  ||.+.......        ... .     . ....+...+.
T Consensus        15 ~~~~~ILv~vD~s~~s~~al~~A~~lA~-~~a~l~ll~a~v~~~~~~~~~--------~~~-~-----~-~~~~~~~~~~   78 (163)
T 1tq8_A           15 SAYKTVVVGTDGSDSSMRAVDRAAQIAG-ADAKLIIASAYLPQHEDARAA--------DIL-K-----D-ESYKVTGTAP   78 (163)
T ss_dssp             CCCCEEEEECCSSHHHHHHHHHHHHHHT-TTSEEEEEEECCC-----------------------------------CCT
T ss_pred             ccCCEEEEEcCCCHHHHHHHHHHHHHhC-CCCEEEEEEeeeccCcccccc--------ccc-c-----c-HHHHHHHHHH
Confidence            4679999999999999999999999999 99999999  87765432000        000 0     0 0111223345


Q ss_pred             ChhHHHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           80 NPEVLDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .++.++.+.+.+...|++ +++.+..|++.++|++++++.++|+||||+++++.+.++++||++++|+++++|||++||+
T Consensus        79 ~~~~l~~~~~~~~~~gv~~v~~~v~~G~~~~~I~~~a~~~~~DLIV~G~~g~~~~~~~~lGSva~~vl~~a~~PVlvV~~  158 (163)
T 1tq8_A           79 IYEILHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKADLLVVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVHT  158 (163)
T ss_dssp             HHHHHHHHHHHHHTTTCCEEEEEEECSSHHHHHHHHHHHTTCSEEEEECCCCCSHHHHHTBBHHHHHHHHTTCEEEEECC
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEEEecCCHHHHHHHHHHhcCCCEEEECCCCCCcccceeeccHHHHHHHhCCCCEEEEeC
Confidence            567777777778888998 9998999999999999999999999999999999998999999999999999999999987


Q ss_pred             CC
Q 031202          159 NP  160 (164)
Q Consensus       159 ~~  160 (164)
                      +.
T Consensus       159 ~~  160 (163)
T 1tq8_A          159 TE  160 (163)
T ss_dssp             C-
T ss_pred             CC
Confidence            54

>3dlo_A Universal stress protein; unknown function, structural genomics, PSI-2, protein struct initiative, midwest center for structural genomics; HET: MSE; 1.97A {Archaeoglobus fulgidus} PDB: 3qtb_A*

Probab=99.96  E-value=1.7e-28  Score=162.09  Aligned_cols=131  Identities=22%  Similarity=0.339  Sum_probs=110.8

Q ss_pred             CCCcEEEEEecC-ChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            2 SKARTVGVGMDN-SPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         2 ~~~~~ILv~~d~-s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |++++|||++|+ ++.+..++++|+.+|+..+++|+++||.+.....               ....          .+..
T Consensus        22 mm~~~ILv~vD~~s~~s~~al~~A~~la~~~~a~l~llhV~~~~~~~---------------~~~~----------~~~~   76 (155)
T 3dlo_A           22 MIYMPIVVAVDKKSDRAERVLRFAAEEARLRGVPVYVVHSLPGGGRT---------------KDED----------IIEA   76 (155)
T ss_dssp             CCCCCEEEECCSSSHHHHHHHHHHHHHHHHHTCCEEEEEEECCSTTS---------------CHHH----------HHHH
T ss_pred             cccCeEEEEECCCCHHHHHHHHHHHHHHHhcCCEEEEEEEEcCCCcc---------------cHHH----------HHHH
Confidence            468999999999 9999999999999999999999999999865211               0111          0124


Q ss_pred             hhHHHHHHHHhhhcCceEEEE--EeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           81 PEVLDILDTLSRTKGAKVVAK--VYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~--v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ++.++.+.+.+...|+.+++.  +..|++.++|++++++.++|+||||+++++++.++++||++++|+++++||||+|+
T Consensus        77 ~~~l~~~~~~~~~~g~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIV~G~~g~~~~~~~~lGSv~~~vl~~a~~PVLvVr  155 (155)
T 3dlo_A           77 KETLSWAVSIIRKEGAEGEEHLLVRGKEPPDDIVDFADEVDAIAIVIGIRKRSPTGKLIFGSVARDVILKANKPVICIK  155 (155)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEESSSCHHHHHHHHHHHTTCSEEEEECCEECTTSCEECCHHHHHHHHHCSSCEEEEC
T ss_pred             HHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCEEeccHHHHHHHhCCCCEEEeC
Confidence            566777777777788877754  56699999999999999999999999999999999999999999999999999986

>2z08_A Universal stress protein family; uncharacterized conserved protein, structural genomics, unknown function, NPPSFA; HET: ATP; 1.55A {Thermus thermophilus} SCOP: c.26.2.4 PDB: 1wjg_A* 2z09_A* 2z3v_A

Probab=99.95  E-value=4.3e-28  Score=156.79  Aligned_cols=136  Identities=29%  Similarity=0.389  Sum_probs=104.3

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      |+++||||+|+|+.+..++++|..+|+..+++|+++||.++....     +  .+  ..+ ..+.         ++..++
T Consensus         1 m~~~ILv~~D~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~-----~--~~--~~~-~~~~---------~~~~~~   61 (137)
T 2z08_A            1 MFKTILLAYDGSEHARRAAEVAKAEAEAHGARLIVVHAYEPVPDY-----L--GE--PFF-EEAL---------RRRLER   61 (137)
T ss_dssp             CCSEEEEECCSSHHHHHHHHHHHHHHHHHTCEEEEEEEECC---------------------------------CHHHHH
T ss_pred             CcceEEEEeCCCHHHHHHHHHHHHHHhhcCCEEEEEEEecCCCcc-----c--cc--cch-HHHH---------HHHHHH
Confidence            379999999999999999999999999999999999999743210     0  00  000 0000         001122


Q ss_pred             HHHHHHHHhhhcCc-eEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           83 VLDILDTLSRTKGA-KVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        83 ~~~~~~~~~~~~~~-~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ..+.+.+.....|+ ++++.+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++|||+++|
T Consensus        62 ~~~~l~~~~~~~g~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~~~~~~~~~~Gs~~~~vl~~~~~pVlvv~  137 (137)
T 2z08_A           62 AEGVLEEARALTGVPKEDALLLEGVPAEAILQAARAEKADLIVMGTRGLGALGSLFLGSQSQRVVAEAPCPVLLVR  137 (137)
T ss_dssp             HHHHHHHHHHHHCCCGGGEEEEESSHHHHHHHHHHHTTCSEEEEESSCTTCCSCSSSCHHHHHHHHHCSSCEEEEC
T ss_pred             HHHHHHHHHHHcCCCccEEEEEecCHHHHHHHHHHHcCCCEEEECCCCCchhhhhhhccHHHHHHhcCCCCEEEeC
Confidence            33334443333688 7777888999999999999999999999999999989889999999999999999999996

>2gm3_A Unknown protein; AT3G01520, putative ethylene-responsive protein, USP domain, nucleotide binding domain, AMP; HET: MSE AMP; 2.46A {Arabidopsis thaliana} SCOP: c.26.2.4

Probab=99.94  E-value=9.6e-27  Score=156.33  Aligned_cols=150  Identities=31%  Similarity=0.537  Sum_probs=102.9

Q ss_pred             CCcEEEEEecCCh---------hhHHHHHHHHHHh-cc--CCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhh
Q 031202            3 KARTVGVGMDNSP---------NSKAALRWAADNL-ID--SGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREIN   70 (164)
Q Consensus         3 ~~~~ILv~~d~s~---------~s~~al~~a~~la-~~--~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   70 (164)
                      .+++|||++|+++         .+..++++|+.++ +.  .+++|+++||.+......     ...+........+..  
T Consensus         4 ~~~~ILv~vD~s~~~~~~~~~~~s~~al~~a~~la~~~~~~~a~l~ll~v~~~~~~~~-----~~~~~~~~~~~~~~~--   76 (175)
T 2gm3_A            4 EPTKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDGF-----DDVDSIYASPEDFRD--   76 (175)
T ss_dssp             -CEEEEEECCBCSSSCTTCBCHHHHHHHHHHHHHTTTTCTTSEEEEEEEEEC---------------CCCCSHHHHHH--
T ss_pred             CccEEEEEECCCcccccccccHHHHHHHHHHHHHhhcccCCCCEEEEEEEeecccccc-----cccccccCCHHHHHH--
Confidence            5799999999999         9999999999987 43  689999999986542110     000000111111110  


Q ss_pred             hhhhhcCCCChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCC
Q 031202           71 FSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSS  150 (164)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~  150 (164)
                       ..+...+..++.++.+.+.+...|+++++++..|++.++|++++++.++||||||+++++++.++++||++++|+++++
T Consensus        77 -~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~~~~~~~~Gsva~~vl~~a~  155 (175)
T 2gm3_A           77 -MRQSNKAKGLHLLEFFVNKCHEIGVGCEAWIKTGDPKDVICQEVKRVRPDFLVVGSRGLGRFQKVFVGTVSAFCVKHAE  155 (175)
T ss_dssp             -HTTSHHHHHHHHHHHHHHHHHHHTCEEEEEEEESCHHHHHHHHHHHHCCSEEEEEECCCC--------CHHHHHHHHCS
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHCCCceEEEEecCCHHHHHHHHHHHhCCCEEEEeCCCCChhhhhhcCchHHHHHhCCC
Confidence             0111111234556666666777899999989999999999999999999999999999999989999999999999999


Q ss_pred             ccEEEEeCCC
Q 031202          151 CPVTVVKGNP  160 (164)
Q Consensus       151 ~pVliv~~~~  160 (164)
                      ||||+||...
T Consensus       156 ~pVlvv~~~~  165 (175)
T 2gm3_A          156 CPVMTIKRNA  165 (175)
T ss_dssp             SCEEEEECCG
T ss_pred             CCEEEEcCCc
Confidence            9999999754

>3olq_A Universal stress protein E; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: UNL; 1.82A {Proteus mirabilis}

Probab=99.94  E-value=1.2e-26  Score=169.17  Aligned_cols=149  Identities=18%  Similarity=0.158  Sum_probs=115.6

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |+++++|||++|+|+.+..++++|+.+|+..+++|+++|+.+......       .  .........   ...+...+..
T Consensus         4 M~~~k~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~-------~--~~~~~~~~~---~~~~~~~~~~   71 (319)
T 3olq_A            4 MEKYQNLLVVIDPNQDDQPALRRAVYIVQRNGGRIKAFLPVYDLSYDM-------T--TLLSPDERN---AMRKGVINQK   71 (319)
T ss_dssp             -CCSCEEEEECCTTCSCCHHHHHHHHHHHHHCCEEEEEEEECCGGGGC-------T--TTSCHHHHH---HHHHHHHHHH
T ss_pred             ccccceEEEEECCCcccHHHHHHHHHHHHHcCCeEEEEEEecccchhh-------c--cccChhhHH---HHHHHHHHHH
Confidence            889999999999999999999999999999999999999987542211       0  011111111   1111111223


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ++.++.+.+.+...|+++++.+. .|++.++|.+++++.++||||||+++++.+.+.++||++.+|+++++||||++|+.
T Consensus        72 ~~~l~~~~~~~~~~~v~~~~~~~~~g~~~~~i~~~a~~~~~DLiV~G~~g~~~~~~~~~Gs~~~~vl~~~~~PVlvv~~~  151 (319)
T 3olq_A           72 TAWIKQQARYYLEAGIQIDIKVIWHNRPYEAIIEEVITDKHDLLIKMAHQHDKLGSLIFTPLDWQLLRKCPAPVWMVKDK  151 (319)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEECSCHHHHHHHHHHHHTCSEEEEEEBCC--CCSCBCCHHHHHHHHHCSSCEEEEESS
T ss_pred             HHHHHHHHHHHhhcCCeEEEEEEecCChHHHHHHHHHhcCCCEEEEecCcCchhhcccccccHHHHHhcCCCCEEEecCc
Confidence            45666666667778999999988 89999999999999999999999999998889999999999999999999999976


Q ss_pred             CC
Q 031202          160 PV  161 (164)
Q Consensus       160 ~~  161 (164)
                      ..
T Consensus       152 ~~  153 (319)
T 3olq_A          152 EW  153 (319)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>3fdx_A Putative filament protein / universal stress PROT; structural genomics, APC60640.1, universal protein F, PSI-2; HET: MSE ATP; 1.58A {Klebsiella pneumoniae subsp} PDB: 3fh0_A*

Probab=99.94  E-value=6.5e-27  Score=152.12  Aligned_cols=138  Identities=17%  Similarity=0.202  Sum_probs=105.8

Q ss_pred             CcEEEEEecCChh--hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            4 ARTVGVGMDNSPN--SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         4 ~~~ILv~~d~s~~--s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      .++||||+|+|+.  +..++++|+.+|+..+++|+++||.+.......      .+.......         +..++..+
T Consensus         1 ~k~ILv~vD~s~~~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~------~~~~~~~~~---------~~~~~~~~   65 (143)
T 3fdx_A            1 SNAILVPIDISDKEFTERIISHVESEARIDDAEVHFLTVIPSLPYYAS------LGMAYTAEL---------PGMDELRE   65 (143)
T ss_dssp             CCEEEEECCTTCSSCCTTHHHHHHHHHHHHTCEEEEEEEECC-------------------------------CHHHHHH
T ss_pred             CCEEEEEecCChHhhHHHHHHHHHHHHHhcCCeEEEEEEecCCccccc------ccccccchh---------hhHHHHHH
Confidence            3799999999999  999999999999999999999999987542210      000000000         00011234


Q ss_pred             hHHHHHHHHhhhcC---ceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKG---AKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~---~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      +..+.+.+.+...+   .++++.+..|++.++|++++++.++|+||||+++ +++.++++||++++|+++++||||+||
T Consensus        66 ~~~~~l~~~~~~~~~~~~~v~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~-~~~~~~~~Gs~~~~v~~~~~~pVlvv~  143 (143)
T 3fdx_A           66 GSETQLKEIAKKFSIPEDRMHFHVAEGSPKDKILALAKSLPADLVIIASHR-PDITTYLLGSNAAAVVRHAECSVLVVR  143 (143)
T ss_dssp             HHHHHHHHHHTTSCCCGGGEEEEEEESCHHHHHHHHHHHTTCSEEEEESSC-TTCCSCSSCHHHHHHHHHCSSEEEEEC
T ss_pred             HHHHHHHHHHHHcCCCCCceEEEEEecChHHHHHHHHHHhCCCEEEEeCCC-CCCeeeeeccHHHHHHHhCCCCEEEeC
Confidence            56666777777665   4578889999999999999999999999999995 778889999999999999999999997

>1jmv_A USPA, universal stress protein A; chaperone; 1.85A {Haemophilus influenzae} SCOP: c.26.2.4

Probab=99.94  E-value=3e-26  Score=148.68  Aligned_cols=139  Identities=22%  Similarity=0.153  Sum_probs=107.3

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      |+++|||++|+|+.+..++++|..+|+..+++|+++||.+......       .+   .....      .....++..++
T Consensus         1 m~~~ILv~~D~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~-------~~---~~~~~------~~~~~~~~~~~   64 (141)
T 1jmv_A            1 MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLY-------TG---LIDVN------MSSMQDRISTE   64 (141)
T ss_dssp             CCSEEEEEECCSTTHHHHHHHHHHHHHHHTCEEEEEEEEECCGGGC-------CC---CEEHH------HHHHTTCCCCH
T ss_pred             CCceEEEEecCchhhHHHHHHHHHHHHhcCCEEEEEEEecCchhhh-------cc---ccccc------hHHHHHHHHHH
Confidence            4799999999999999999999999999999999999984321100       00   00000      01112233445


Q ss_pred             HHHHHHHHhhhcCceE-EEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           83 VLDILDTLSRTKGAKV-VAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~-~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      ..+.+.+.+...|+++ ...+..|++.++|++++++.++|+||||++ ++++.+  +||++++|+++++||||++|+..
T Consensus        65 ~~~~l~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~-~~~~~~--lgs~~~~vl~~~~~pVlvv~~~~  140 (141)
T 1jmv_A           65 TQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHH-QDFWSK--LMSSTRQVMNTIKIDMLVVPLRD  140 (141)
T ss_dssp             HHHHHHHHHHHSSSCCCCEEEEEECHHHHHHHHHHHTTCCEEEEEEC-CCCHHH--HHHHHHHHHTTCCSEEEEEECCC
T ss_pred             HHHHHHHHHHHcCCCceEEEEecCCHHHHHHHHHHhcCCCEEEEeCC-Cchhhh--hcchHHHHHhcCCCCEEEeeCCC
Confidence            5666666666778876 566888999999999999999999999999 887766  48999999999999999999753

>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa}

Probab=99.93  E-value=2.5e-25  Score=160.39  Aligned_cols=125  Identities=15%  Similarity=0.120  Sum_probs=112.7

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |+++++|||++|+|+.+..++++|+.+|+..+++|+++|+.++                                  +..
T Consensus         4 M~~~~~ILv~~D~s~~s~~al~~A~~la~~~~a~l~ll~v~~~----------------------------------~~~   49 (290)
T 3mt0_A            4 MQAIRSILVVIEPDQLEGLALKRAQLIAGVTQSHLHLLVCEKR----------------------------------RDH   49 (290)
T ss_dssp             TTTCCEEEEECCSSCSCCHHHHHHHHHHHHHCCEEEEEEECSS----------------------------------SCC
T ss_pred             hhhhceEEEEeCCCccchHHHHHHHHHHHhcCCeEEEEEeeCc----------------------------------HHH
Confidence            7789999999999999999999999999999999999999863                                  224


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ++.++.+.+.+...|+++++.+. .|++.++|.+++++.++|+||||+++++.+.+.++||++++++++++||||++|+.
T Consensus        50 ~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dliV~G~~~~~~~~~~~~gs~~~~vl~~~~~PVlvv~~~  129 (290)
T 3mt0_A           50 SAALNDLAQELREEGYSVSTNQAWKDSLHQTIIAEQQAEGCGLIIKQHFPDNPLKKAILTPDDWKLLRFAPCPVLMTKTA  129 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSSSHHHHHHHHHHHHTCSEEEEECCCSCTTSTTSCCHHHHHHHHHCSSCEEEECCC
T ss_pred             HHHHHHHHHHHhhCCCeEEEEEEeCCCHHHHHHHHHHhcCCCEEEEecccCCchhhcccCHHHHHHHhcCCCCEEEecCC
Confidence            56667777777788999999887 57899999999999999999999999998889999999999999999999999943

>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus}

Probab=99.92  E-value=8.1e-26  Score=163.20  Aligned_cols=144  Identities=24%  Similarity=0.259  Sum_probs=116.6

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |||+++|||++|+|+.+..++++|+.+|+..+++|+++|+.+......       .. .......+..      ..++..
T Consensus        19 m~m~~~ILv~vD~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~-------~~-~~~~~~~~~~------~~~~~~   84 (294)
T 3loq_A           19 YFQSNAMLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLST-------VS-GGIDIDHYID------EMSEKA   84 (294)
T ss_dssp             SSTTCEEEEECCSCTGGGGGGGGHHHHHHTTCCEEEEECCEECTTC-------------CCCTTHHHH------HHHHHH
T ss_pred             HHhhccEEEecCCCHHHHHHHHHHHHHHhhcCCEEEEEEEecCccccc-------cc-ccccHHHHHH------HHHHHH
Confidence            678999999999999999999999999999999999999998764321       00 0011111111      111234


Q ss_pred             hhHHHHHHHHhhhcCceEEE-EEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           81 PEVLDILDTLSRTKGAKVVA-KVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~-~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      ++.++.+.+.+...|+++++ .+. .|++.++|  ++++.++|+||||+++++.+.++++||++++|+++++||||++|+
T Consensus        85 ~~~l~~~~~~~~~~g~~~~~~~v~~~g~~~~~I--~a~~~~~DliV~G~~g~~~~~~~~~Gs~~~~vl~~~~~PVlvv~~  162 (294)
T 3loq_A           85 EEVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEI--IKASENYSFIAMGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKH  162 (294)
T ss_dssp             HHHHHHHHHHHHHTTCEEEECSSCCEECHHHHH--HHHHTTSSEEEEECCCCCHHHHHHHCCHHHHHHHHCSSCEEEECC
T ss_pred             HHHHHHHHHHHHHcCCCcceeEeeccCChhHhe--eeccCCCCEEEEcCCCCccccceeeccHHHHHHhcCCCCEEEecC
Confidence            56777777888888999998 777 89999999  999999999999999999888889999999999999999999997


Q ss_pred             CC
Q 031202          159 NP  160 (164)
Q Consensus       159 ~~  160 (164)
                      ..
T Consensus       163 ~~  164 (294)
T 3loq_A          163 DM  164 (294)
T ss_dssp             CT
T ss_pred             cc
Confidence            65

>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa}

Probab=99.91  E-value=7.8e-24  Score=152.58  Aligned_cols=137  Identities=16%  Similarity=0.146  Sum_probs=106.9

Q ss_pred             CCcEEEEEecCChh-------hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhh
Q 031202            3 KARTVGVGMDNSPN-------SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQY   75 (164)
Q Consensus         3 ~~~~ILv~~d~s~~-------s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (164)
                      .+++|||++|+|+.       +..++++|..+|+..+++|+++||.+......        .   .+...+..       
T Consensus       133 ~~~~Ilva~D~s~~~~~~~~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~--------~---~~~~~~~~-------  194 (290)
T 3mt0_A          133 TGGKILAAVDVGNNDGEHRSLHAGIISHAYDIAGLAKATLHVISAHPSPMLSS--------A---DPTFQLSE-------  194 (290)
T ss_dssp             TTCEEEEEECTTCCSHHHHHHHHHHHHHHHHHHHHTTCEEEEEEEEC--------------------CHHHHH-------
T ss_pred             CCCeEEEEECCCCcchhhhHHHHHHHHHHHHHHHHcCCeEEEEEEecCccccc--------c---CchhHHHH-------
Confidence            46899999999998       89999999999999999999999998764321        0   00001111       


Q ss_pred             cCCCChhHHHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           76 GLTSNPEVLDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                        +..++..+.+.++..+.|++ +...+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++||||
T Consensus       195 --~~~~~~~~~l~~~~~~~g~~~~~~~v~~g~~~~~I~~~a~~~~~dLiVmG~~g~~~~~~~~~Gsv~~~vl~~~~~pVL  272 (290)
T 3mt0_A          195 --TIEARYREACRTFQAEYGFSDEQLHIEEGPADVLIPRTAQKLDAVVTVIGTVARTGLSGALIGNTAEVVLDTLESDVL  272 (290)
T ss_dssp             --HHHHHHHHHHHHHHHHHTCCTTTEEEEESCHHHHHHHHHHHHTCSEEEEECCSSCCGGGCCSCHHHHHHHTTCSSEEE
T ss_pred             --HHHHHHHHHHHHHHHHcCCCcceEEEeccCHHHHHHHHHHhcCCCEEEECCCCCcCCcceecchHHHHHHhcCCCCEE
Confidence              11223445555566666774 566688999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCC
Q 031202          155 VVKGN  159 (164)
Q Consensus       155 iv~~~  159 (164)
                      ++|+.
T Consensus       273 vv~~~  277 (290)
T 3mt0_A          273 VLKPD  277 (290)
T ss_dssp             EECCH
T ss_pred             EECCC
Confidence            99864

>1q77_A Hypothetical protein AQ_178; structural genomics, universal stress protein, PSI, protein structure initiative; 2.70A {Aquifex aeolicus} SCOP: c.26.2.4

Probab=99.91  E-value=4.2e-24  Score=138.07  Aligned_cols=133  Identities=17%  Similarity=0.093  Sum_probs=97.1

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEe-CC-CCCcccccccccCCCCCCChhhHHHhhhhhhhcCCC
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQ-PP-NADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTS   79 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (164)
                      .++++|||++|+|+.+..++++|..+|+..+++|+++|+. +. +...    .+...+.+..  ..+..  ...    +.
T Consensus         2 ~~~~~ILv~~D~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~----~~~~~~~~~~--~~~~~--~~~----~~   69 (138)
T 1q77_A            2 NAMKVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLER----ANVTFGLPFP--PEIKE--ESK----KR   69 (138)
T ss_dssp             CCCEEEEEEESTTCCCHHHHHHHHHHHTTTCCEEEEEEECHHHHHHHH----HHHHHCCCCC--THHHH--HHH----HH
T ss_pred             CcccEEEEEccCCHhHHHHHHHHHHHHHHcCCeEEEEEEecccccccc----cccccCCCCC--hHHHH--HHH----HH
Confidence            3689999999999999999999999999999999999998 53 1000    0000011100  11111  011    11


Q ss_pred             ChhHHHHHHHH--hhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           80 NPEVLDILDTL--SRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        80 ~~~~~~~~~~~--~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      .++.++.+ +.  +...| ++++++..|++.++|++++++.++|+||||++++         |++++|+++++||||++|
T Consensus        70 ~~~~l~~~-~~~~~~~~~-~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~g~---------sv~~~vl~~a~~PVlvv~  138 (138)
T 1q77_A           70 IERRLREV-WEKLTGSTE-IPGVEYRIGPLSEEVKKFVEGKGYELVVWACYPS---------AYLCKVIDGLNLASLIVK  138 (138)
T ss_dssp             HHHHHHHH-HHHHHSCCC-CCCEEEECSCHHHHHHHHHTTSCCSEEEECSCCG---------GGTHHHHHHSSSEEEECC
T ss_pred             HHHHHHHH-HHHhhccCC-cceEEEEcCCHHHHHHHHHHhcCCCEEEEeCCCC---------chHHHHHHhCCCceEeeC
Confidence            23444444 44  34456 7888888999999999999999999999998865         899999999999999986

>3cis_A Uncharacterized protein; alpha/beta hydrolase, ATP, universal stress protein, unknown function; HET: ATP; 2.90A {Mycobacterium tuberculosis} PDB: 2jax_A*

Probab=99.91  E-value=3.2e-24  Score=155.88  Aligned_cols=142  Identities=23%  Similarity=0.368  Sum_probs=110.6

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      +++++|||++|+|+.+..++++|+.+|+..+++|+++|+.++....     +..   ...+ .....  ...    +..+
T Consensus        17 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~-----~~~---~~~~-~~~~~--~~~----~~~~   81 (309)
T 3cis_A           17 NSSLGIIVGIDDSPAAQVAVRWAARDAELRKIPLTLVHAVSPEVAT-----WLE---VPLP-PGVLR--WQQ----DHGR   81 (309)
T ss_dssp             -CTTEEEEECCSSHHHHHHHHHHHHHHHHHTCCEEEEEECCCCCCC-----TTC---CCCC-HHHHH--HHH----HHHH
T ss_pred             CCCCeEEEEECCCHHHHHHHHHHHHHHHhcCCcEEEEEEecCcccc-----ccc---CCCC-chhhH--HHH----HHHH
Confidence            4689999999999999999999999999999999999998743211     100   0111 11111  111    1234


Q ss_pred             hHHHHHHHHhhhc-----CceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           82 EVLDILDTLSRTK-----GAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        82 ~~~~~~~~~~~~~-----~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      +.++.+.+.+...     |+++++.+..|++.++|+++++  ++|+||||+++++++.++++||++++|+++++||||++
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~--~~DliV~G~~g~~~~~~~~~Gs~~~~vl~~~~~PVlvv  159 (309)
T 3cis_A           82 HLIDDALKVVEQASLRAGPPTVHSEIVPAAAVPTLVDMSK--DAVLMVVGCLGSGRWPGRLLGSVSSGLLRHAHCPVVII  159 (309)
T ss_dssp             HHHHHHHHHHHHHCSSSCCSCEEEEEESSCHHHHHHHHGG--GEEEEEEESSCTTCCTTCCSCHHHHHHHHHCSSCEEEE
T ss_pred             HHHHHHHHHHHHhcccCCCceEEEEEecCCHHHHHHHHhc--CCCEEEECCCCCccccccccCcHHHHHHHhCCCCEEEE
Confidence            5566666666654     8999999999999999999997  67999999999998889999999999999999999999


Q ss_pred             eCCC
Q 031202          157 KGNP  160 (164)
Q Consensus       157 ~~~~  160 (164)
                      |...
T Consensus       160 ~~~~  163 (309)
T 3cis_A          160 HDED  163 (309)
T ss_dssp             CTTC
T ss_pred             cCCc
Confidence            9764

>3ab8_A Putative uncharacterized protein TTHA0350; tandem-type universal stress protein, unknown function; HET: ATP; 1.70A {Thermus thermophilus} PDB: 3ab7_A*

Probab=99.90  E-value=3e-24  Score=153.04  Aligned_cols=149  Identities=19%  Similarity=0.137  Sum_probs=111.3

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHH-hhhhhhhcCCCChhH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFRE-INFSKQYGLTSNPEV   83 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   83 (164)
                      ++|||++|+|+.+..++++|+.+|+..+++|+++|+.+......    ....+.... ...+.. +....+...+..++.
T Consensus         1 k~ILv~vD~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~----~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   75 (268)
T 3ab8_A            1 MRILLATDGSPQARGAEALAEWLAYKLSAPLTVLFVVDTRLARI----PELLDFGAL-TVPVPVLRTELERALALRGEAV   75 (268)
T ss_dssp             CCEEEECCSCGGGHHHHHHHHHHHHHHTCCEEEEEEEEHHHHTH----HHHC--------CHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEcCCCHHHHHHHHHHHHHHHHhCCcEEEEEEeccCCccc----ccccCchHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999987542110    000111100 001100 000011112234566


Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCc-cccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLG-ALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~-~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      ++.+.+.+...|+++++.+..|++.++|+++  +.++|+||||+++++ .+.++++||++++|+++++|||+++|+..
T Consensus        76 l~~~~~~~~~~g~~~~~~~~~g~~~~~I~~~--~~~~dliV~G~~g~~~~~~~~~~Gs~~~~v~~~a~~PVlvv~~~~  151 (268)
T 3ab8_A           76 LERVRQSALAAGVAVEAVLEEGVPHEAILRR--ARAADLLVLGRSGEAHGDGFGGLGSTADRVLRASPVPVLLAPGEP  151 (268)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECHHHHHHHH--HTTCSEEEEESSCTTSCTTCCSCCHHHHHHHHHCSSCEEEECSSC
T ss_pred             HHHHHHHHHhCCCCeEEEEecCCHHHHHHhh--ccCCCEEEEeccCCCccccccccchhHHHHHHhCCCCEEEECCCC
Confidence            7777777778899999999999999999999  888999999999988 88889999999999999999999999754

>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus}

Probab=99.90  E-value=3.7e-23  Score=149.27  Aligned_cols=124  Identities=27%  Similarity=0.387  Sum_probs=113.0

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      .+++|||++|+++.+..++++|..+++..+++|+++|+.+...                                  .++
T Consensus       169 ~~~~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~----------------------------------~~~  214 (294)
T 3loq_A          169 LFDRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGD----------------------------------KTA  214 (294)
T ss_dssp             TTSEEEEECCSSHHHHHHHHHHHHHHHHHTCEEEEEEECSSSC----------------------------------CHH
T ss_pred             cCCEEEEEECCCHHHHHHHHHHHHHhhhcCCEEEEEEEccCch----------------------------------HHH
Confidence            5789999999999999999999999999999999999987642                                  245


Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      .++.+.+.+...|+++++.+..|++.++|.+++++.++||||||+++++++.++++||++++|+++++||||++|+..
T Consensus       215 ~l~~~~~~l~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dLlV~G~~~~~~~~~~~~Gs~~~~vl~~~~~pvLvv~~~~  292 (294)
T 3loq_A          215 DLRVMEEVIGAEGIEVHVHIESGTPHKAILAKREEINATTIFMGSRGAGSVMTMILGSTSESVIRRSPVPVFVCKRGD  292 (294)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEECSCHHHHHHHHHHHTTCSEEEEECCCCSCHHHHHHHCHHHHHHHHCSSCEEEECSCT
T ss_pred             HHHHHHHHHHHcCCcEEEEEecCCHHHHHHHHHHhcCcCEEEEeCCCCCCccceeeCcHHHHHHhcCCCCEEEECCCC
Confidence            666777777788999998899999999999999999999999999999999999999999999999999999999764

>3olq_A Universal stress protein E; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: UNL; 1.82A {Proteus mirabilis}

Probab=99.89  E-value=9e-23  Score=148.64  Aligned_cols=143  Identities=15%  Similarity=0.170  Sum_probs=111.2

Q ss_pred             CCcEEEEEecCCh-------hhHHHHHHHHHHhccC--CCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhh
Q 031202            3 KARTVGVGMDNSP-------NSKAALRWAADNLIDS--GDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSK   73 (164)
Q Consensus         3 ~~~~ILv~~d~s~-------~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (164)
                      .+++|||++|+++       .+..++++|..+|+..  +++|+++|+.+......      ..+.+......+..     
T Consensus       155 ~~~~Ilva~D~s~~~~~~~~~s~~al~~a~~la~~~~~~a~l~ll~v~~~~~~~~------~~~~~~~~~~~~~~-----  223 (319)
T 3olq_A          155 EYGTIVVAANLSNEESYHDALNLKLIELTNDLSHRIQKDPDVHLLSAYPVAPINI------AIELPDFDPNLYNN-----  223 (319)
T ss_dssp             TTCEEEEECCCSCCSTHHHHHHHHHHHHHHHHHHHHCSSCCEEEEEEECCCSCSC------CTTCTTCCHHHHHH-----
T ss_pred             cCCeEEEEECCCCcchhHHHHHHHHHHHHHHHHHhccCCCeEEEEEeecCcchhh------hccCCcccHHHHHH-----
Confidence            4789999999998       5799999999999998  99999999998764321      01111111111111     


Q ss_pred             hhcCCCChhHHHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCcc
Q 031202           74 QYGLTSNPEVLDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCP  152 (164)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~p  152 (164)
                          +..++..+.+.+++...++. +...+..|++.++|++++++.++||||||+++++++.++++||++++|+++++||
T Consensus       224 ----~~~~~~~~~l~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dLiV~G~~g~~~~~~~~~Gsv~~~vl~~~~~p  299 (319)
T 3olq_A          224 ----ALRGQHLIAMKELRQKFSIPEEKTHVKEGLPEQVIPQVCEELNAGIVVLGILGRTGLSAAFLGNTAEQLIDHIKCD  299 (319)
T ss_dssp             ----HHHHHHHHHHHHHHHHTTCCGGGEEEEESCHHHHHHHHHHHTTEEEEEEECCSCCSTHHHHHHHHHHHHHTTCCSE
T ss_pred             ----HHHHHHHHHHHHHHHHhCCCcccEEEecCCcHHHHHHHHHHhCCCEEEEeccCccCCccccccHHHHHHHhhCCCC
Confidence                11234455566666666663 5566789999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCC
Q 031202          153 VTVVKGNP  160 (164)
Q Consensus       153 Vliv~~~~  160 (164)
                      ||++|+..
T Consensus       300 VLvv~~~~  307 (319)
T 3olq_A          300 LLAIKPDG  307 (319)
T ss_dssp             EEEECCTT
T ss_pred             EEEECCCC
Confidence            99998754

>3cis_A Uncharacterized protein; alpha/beta hydrolase, ATP, universal stress protein, unknown function; HET: ATP; 2.90A {Mycobacterium tuberculosis} PDB: 2jax_A*

Probab=99.88  E-value=2.6e-22  Score=145.84  Aligned_cols=136  Identities=24%  Similarity=0.247  Sum_probs=104.5

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      .+++|||++|+++.+..++++|..+|+..+++|+++|+.++....         +.+.........          ..++
T Consensus       170 ~~~~Ilv~~D~s~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~---------~~~~~~~~~~~~----------~~~~  230 (309)
T 3cis_A          170 QQAPVLVGVDGSSASELATAIAFDEASRRNVDLVALHAWSDVDVS---------EWPGIDWPATQS----------MAEQ  230 (309)
T ss_dssp             CCCCEEEECCSSHHHHHHHHHHHHHHHHTTCCEEEEEESCSSCCT---------TCSSCCHHHHHH----------HHHH
T ss_pred             CCCeEEEEeCCChHHHHHHHHHHHHHHhcCCEEEEEEEeeccccc---------CCCcccHHHHHH----------HHHH
Confidence            368999999999999999999999999999999999998764321         000001111100          1122


Q ss_pred             HHHHHHHHhhh--cCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           83 VLDILDTLSRT--KGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        83 ~~~~~~~~~~~--~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      .++.+.+.+..  .+++++.++..|++.++|+++++  ++|+||||+++++++.++++||++++|+++++|||+++|++
T Consensus       231 ~l~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~--~adliV~G~~~~~~~~~~l~Gsv~~~vl~~~~~pVlvv~~~  307 (309)
T 3cis_A          231 VLAERLAGWQERYPNVAITRVVVRDQPARQLVQRSE--EAQLVVVGSRGRGGYAGMLVGSVGETVAQLARTPVIVARES  307 (309)
T ss_dssp             HHHHHHTTHHHHCTTSCEEEEEESSCHHHHHHHHHT--TCSEEEEESSCSSCCTTCSSCHHHHHHHHHCSSCEEEECC-
T ss_pred             HHHHHHHHHHhhCCCCcEEEEEEcCCHHHHHHHhhC--CCCEEEECCCCCCCccccccCcHHHHHHhcCCCCEEEeCCC
Confidence            23333323322  48888888889999999999998  88999999999999999999999999999999999999864

>3ab8_A Putative uncharacterized protein TTHA0350; tandem-type universal stress protein, unknown function; HET: ATP; 1.70A {Thermus thermophilus} PDB: 3ab7_A*

Probab=99.85  E-value=4.1e-21  Score=136.76  Aligned_cols=116  Identities=22%  Similarity=0.249  Sum_probs=101.1

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      .+++|||++|+++.+..++++|..++...+++++++|+.++..                                 ..++
T Consensus       153 ~~~~ilv~~d~s~~~~~al~~a~~la~~~~a~l~ll~v~~~~~---------------------------------~~~~  199 (268)
T 3ab8_A          153 ELEGALLGYDASESAVRALHALAPLARALGLGVRVVSVHEDPA---------------------------------RAEA  199 (268)
T ss_dssp             CCCEEEEECCSCHHHHHHHHHHHHHHHHHTCCEEEEEECSSHH---------------------------------HHHH
T ss_pred             CCCEEEEEECCCHHHHHHHHHHHHhhhcCCCEEEEEEEcCcHH---------------------------------HHHH
Confidence            3689999999999999999999999999999999999986520                                 0134


Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      .++.+.+.+...|+++++.+..|++.++|.+++++.  |+||||+    ++.++++||++++|+++++|||+++|
T Consensus       200 ~l~~~~~~l~~~~~~~~~~~~~g~~~~~i~~~a~~~--dliV~G~----~~~~~~~Gs~~~~vl~~~~~pvlvv~  268 (268)
T 3ab8_A          200 WALEAEAYLRDHGVEASALVLGGDAADHLLRLQGPG--DLLALGA----PVRRLVFGSTAERVIRNAQGPVLTAR  268 (268)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEECSCHHHHHHHHCCTT--EEEEEEC----CCSCCSSCCHHHHHHHHCSSCEEEEC
T ss_pred             HHHHHHHHHHHcCCceEEEEeCCChHHHHHHHHHhC--CEEEECC----cccccEeccHHHHHHhcCCCCEEEeC
Confidence            455666677778999998888999999999999999  9999998    56788999999999999999999986

>2iel_A Hypothetical protein TT0030; TT0030,thermus thermophilus, structural genomics, PSI, protein structure initiative; 1.60A {Thermus thermophilus} SCOP: c.26.2.4

Probab=97.56  E-value=0.0013  Score=41.13  Aligned_cols=129  Identities=17%  Similarity=0.057  Sum_probs=87.0

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCC-CeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSG-DLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~-~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      |++|||.+...=.+..+.+....+..... ..+.++--..+. .          +...       +    .....+.+++
T Consensus         1 m~~vlVlae~tl~~~dl~~vl~~l~~~~~~~~f~VLVPa~~~-~----------a~~~-------e----~~~a~~~A~~   58 (138)
T 2iel_A            1 MARYLVVAHRTAKSPELAAKLKELLAQDPEARFVLLVPAVPP-P----------GWVY-------E----ENEVRRRAEE   58 (138)
T ss_dssp             -CEEEEECSTTTTCHHHHHHHHHHHHHCTTCEEEEEEEEECC-C----------CSCC-------------CHHHHHHHH
T ss_pred             CceEEEEecCccCcHhHHHHHHHhhcCCCceEEEEEecCCCC-c----------cccc-------C----hHHHHHHHHH
Confidence            37999999887766666665566666554 666544433221 0          0000       0    0001122455


Q ss_pred             HHHHHHHHhhhcCceEE-EEEeeCChhhHHHHHHHhcC--CCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           83 VLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLK--LDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~--~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      .++.....++..|..++ .++..++|..++.....+.+  +|-||+-+.++. ..++|.-..+.+.=+ ...||+=+
T Consensus        59 ~l~~sl~aL~~~G~~a~~G~v~d~~Pl~AL~~~v~~~~~~~deiIV~T~Ph~-vs~~fh~DwasrAr~-~gvPVlhl  133 (138)
T 2iel_A           59 EAAAAKRALEAQGIPVEEAKAGDISPLLAIEEELLAHPGAYQGIVLSTLPPG-LSRWLRLDVHTQAER-FGLPVIHV  133 (138)
T ss_dssp             HHHHHHHHHHTTTCCCSEEEEEESSHHHHHHHHHHHSTTSCSEEEEEECCTT-TCHHHHTTHHHHGGG-GSSCEEEE
T ss_pred             HHHHHHHHHHHcCCcccccccCCCChHHHHHHHHHhcCCCCceEEEEcCCch-HHHHHhccHHHHHHh-cCCCEEEE
Confidence            56666667778899999 99999999999999999999  999999988654 345666667777666 88999865

>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA complex; 3.65A {Geobacillus kaustophilus}

Probab=96.59  E-value=0.02  Score=43.68  Aligned_cols=94  Identities=17%  Similarity=0.152  Sum_probs=69.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCC-CcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNA-DHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      -.+|+|+++|..+|-.++..+..+....+.++.++||..... ..                                ...
T Consensus        18 ~~~vlVa~SGG~DS~~Ll~ll~~~~~~~~~~v~avhvdhglrg~~--------------------------------s~~   65 (464)
T 3a2k_A           18 GAAVIVGVSGGPDSLALLHVFLSLRDEWKLQVIAAHVDHMFRGRE--------------------------------SEE   65 (464)
T ss_dssp             SSBEEEECCSSHHHHHHHHHHHHHHHTTTCBCEEEEEECTTCTHH--------------------------------HHH
T ss_pred             CCEEEEEEcCcHHHHHHHHHHHHHHHHcCCeEEEEEEECCCCccc--------------------------------cHH
Confidence            358999999999999999988888777888999999986532 10                                123


Q ss_pred             HHHHHHHHhhhcCceEEEEEee--------C-Ch--------hhHHHHHHHhcCCCEEEEeecC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYW--------G-DP--------REKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~--------g-~~--------~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      ..+.+.+.|...|+++...-..        | ++        -..+.+++++.+++.|+.|++.
T Consensus        66 ~~~~v~~~~~~lgi~~~v~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~IatgH~~  129 (464)
T 3a2k_A           66 EMEFVKRFCVERRILCETAQIDVPAFQRSAGLGAQEAARICRYRFFAELMEKHQAGYVAVGHHG  129 (464)
T ss_dssp             HHHHHHHHHHHTTCEEEEEECCCHHHHTTTTCCSHHHHHHHHHHHHHHHHHTTTCCEEECCCCH
T ss_pred             HHHHHHHHHHHcCCcEEEEEechhhhhhccCCCHHHHHHHHHHHHHHHHHHHcCcCEEEEeCCh
Confidence            4567788888889987765221        1 11        1456677888999999999863

>1wy5_A TILS, hypothetical UPF0072 protein AQ_1887; N-type ATP-ppase, structural genomics, translation, NPPSFA; 2.42A {Aquifex aeolicus} SCOP: c.26.2.5 d.229.1.1 PDB: 2e21_A* 2e89_A*

Probab=96.54  E-value=0.024  Score=40.93  Aligned_cols=93  Identities=10%  Similarity=0.014  Sum_probs=66.4

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCe-EEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDL-IILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~-l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      -++|+|+++|..+|-.++..+..+....+.+ +.++|+.......                                ..+
T Consensus        24 ~~~vlva~SGG~DS~~Ll~ll~~~~~~~g~~~v~av~vd~g~r~~--------------------------------s~~   71 (317)
T 1wy5_A           24 ERRVLIAFSGGVDSVVLTDVLLKLKNYFSLKEVALAHFNHMLRES--------------------------------AER   71 (317)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHSTTTTTCSEEEEEEEECCSSTH--------------------------------HHH
T ss_pred             CCEEEEEecchHHHHHHHHHHHHHHHHcCCCEEEEEEEECCCCcc--------------------------------cHH
Confidence            3689999999999998888887776667778 9999997653210                                123


Q ss_pred             HHHHHHHHhhhcCceEEEEEee--------C-Chh--------hHHHHHHHhcCCCEEEEeec
Q 031202           83 VLDILDTLSRTKGAKVVAKVYW--------G-DPR--------EKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~--------g-~~~--------~~I~~~a~~~~~dliv~g~~  128 (164)
                      ..+.+.+.|...|+++...-..        | ++.        ..+.+.+++.+++.|+.|++
T Consensus        72 ~~~~v~~~a~~lgi~~~v~~~~~~~~~~~~~~~~e~~ar~~Ry~~l~~~a~~~g~~~i~~Gh~  134 (317)
T 1wy5_A           72 DEEFCKEFAKERNMKIFVGKEDVRAFAKENRMSLEEAGRFLRYKFLKEILESEGFDCIATAHH  134 (317)
T ss_dssp             HHHHHHHHHHHHTCCEEEEECCHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHTTCSEEECCCC
T ss_pred             HHHHHHHHHHHcCCcEEEEEEechhhhccCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEeCc
Confidence            4566777888888887654211        1 111        34566788899999999986

>1zun_A Sulfate adenylyltransferase subunit 2; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae} SCOP: c.26.2.2

Probab=95.40  E-value=0.095  Score=38.06  Aligned_cols=92  Identities=17%  Similarity=0.169  Sum_probs=62.9

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      +.+++|+++|..+|..++..+..+....+.++.++|+......                                  .+.
T Consensus        46 ~~~ivVa~SGGkDS~vLL~Ll~~~~~~~~~~i~vv~vDtg~~~----------------------------------~et   91 (325)
T 1zun_A           46 FDNPVMLYSIGKDSAVMLHLARKAFFPGKLPFPVMHVDTRWKF----------------------------------QEM   91 (325)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHHHHTTSCCSSCEEEECCSCCC----------------------------------HHH
T ss_pred             CCCEEEEEcChHHHHHHHHHHHHhccccCCCEEEEEEECCCCC----------------------------------HHH
Confidence            4589999999999999998888876655667888998665421                                  244


Q ss_pred             HHHHHHHhhhcCceEEEEEe-----eCC-hh-------------hHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVY-----WGD-PR-------------EKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~-----~g~-~~-------------~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+.+.+.+...|+++...-.     .|. ..             +.+.+.+++.++|.++.|.+.
T Consensus        92 ~~~v~~~~~~~gi~l~v~~~~~~~~~G~~~~~~~~~~cc~~~K~~pL~~~l~e~g~~~i~tG~R~  156 (325)
T 1zun_A           92 YRFRDQMVEEMGLDLITHINPDGVAQGINPFTHGSAKHTDIMKTEGLKQALDKHGFDAAFGGARR  156 (325)
T ss_dssp             HHHHHHHHHTTTCCEEEECC--------------CCHHHHHHTHHHHHHHHHHHTCSEEECCCCT
T ss_pred             HHHHHHHHHHcCCCEEEEeCchHHhcCCCccccChHHHHHHHHHHHHHHHHHHcCCCEEEEeccc
Confidence            55666677777877665421     121 10             246666777889999999763

>3ih5_A Electron transfer flavoprotein alpha-subunit; alpha-beta-alpha sandwich, structural genomics, PSI-2, protein structure initiative; 2.60A {Bacteroides thetaiotaomicron}

Probab=95.37  E-value=0.059  Score=36.81  Aligned_cols=41  Identities=10%  Similarity=-0.130  Sum_probs=33.8

Q ss_pred             CCcEEEEEecC-----ChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            3 KARTVGVGMDN-----SPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         3 ~~~~ILv~~d~-----s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      .|+.|||.++-     .+.+..++..|.+|+...+.+++++.+-+.
T Consensus         2 ~m~~ilV~~E~~~g~l~~~s~ell~~A~~La~~~g~~v~av~~G~~   47 (217)
T 3ih5_A            2 NANNLFVYCEIEEGIVADVSLELLTKGRSLANELNCQLEAVVAGTG   47 (217)
T ss_dssp             -CCCEEEECCEETTEECHHHHHHHHHHHHHHHHHTCCEEEEEEESC
T ss_pred             CcccEEEEEECcCCEECHHHHHHHHHHHHHHHhcCCeEEEEEECCC
Confidence            46789999874     466899999999999988999999988754

>3g40_A Na-K-CL cotransporter; alpha/beta fold 10-stranded twisted beta sheet, transport protein; 1.90A {Methanosarcina acetivorans}

Probab=94.97  E-value=0.64  Score=33.08  Aligned_cols=122  Identities=10%  Similarity=0.050  Sum_probs=78.8

Q ss_pred             EEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHH
Q 031202            6 TVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLD   85 (164)
Q Consensus         6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (164)
                      +|||++........++++|..+.. ..+-++++++.+.....                               ...+.++
T Consensus        22 ~iLV~sg~p~~~~~li~la~~lt~-~~G~ltv~~i~p~~~~~-------------------------------~l~~ql~   69 (294)
T 3g40_A           22 NLLVPVEDPRELMGTFDFLRDITY-PKGSVKLLGLAGNTDKE-------------------------------NLLSQLP   69 (294)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHT-TTCEEEEEECC---CTT-------------------------------CHHHHHH
T ss_pred             cEEEecCCchhhhhHHHHHHHhcc-CceeEEEEEEccCCCcc-------------------------------HHHHHHH
Confidence            789999776677788888888755 56679999997555321                               1011147


Q ss_pred             HHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhc-----CCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           86 ILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDL-----KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        86 ~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~-----~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      .+.+.+++.++-.-+++. ..++.+++...++.+     .++.|++|......-.. -+..... -+++...-|++++..
T Consensus        70 ~l~~~l~~r~v~a~~~vi~a~d~~~G~~~lvq~yglg~l~PNTilLg~~~~~e~~~-~y~~~i~-~~~~~~~nVlil~~~  147 (294)
T 3g40_A           70 SISEGFQEEGVFSSWTIIDTAEFEENLVVGMEALTGSFFRPSILFLRLPENRDRDE-EIREIIR-KASMYRMGVLLFSKH  147 (294)
T ss_dssp             HHHHHHHHTTCEEEEEEC-----CHHHHHHHHHHTTCSSCSCEEEEECCSSGGGHH-HHHHHHH-HHHHTTCEEEEEECC
T ss_pred             HHHHHHHhCCceeEEEEEecCChhHHHHHHHHHcCCCCCCCCEEEeCCCCChhhhH-HHHHHHH-HHHHhCceEEEEecC
Confidence            788899999999888855 458999998887765     46899999765443221 1222333 344568899999765


Q ss_pred             CC
Q 031202          160 PV  161 (164)
Q Consensus       160 ~~  161 (164)
                      ++
T Consensus       148 ~~  149 (294)
T 3g40_A          148 PQ  149 (294)
T ss_dssp             TT
T ss_pred             Cc
Confidence            43

>4b4k_A N5-carboxyaminoimidazole ribonucleotide mutase; isomerase; 2.50A {Bacillus anthracis}

Probab=94.95  E-value=0.25  Score=32.43  Aligned_cols=72  Identities=15%  Similarity=0.198  Sum_probs=50.7

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-Chhh---HHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPRE---KLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~---~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+.+.+.+++.|++++..|..- ...+   ++.+.+++.+++.||.|.-....+        +.-+.-.++.||+=||
T Consensus        36 ~v~~~a~~~L~~~gI~~e~~V~SAHRtp~~l~~~~~~a~~~g~~ViIa~AG~aahL--------pGvvAa~T~~PVIGVP  107 (181)
T 4b4k_A           36 ETMKYACDILDELNIPYEKKVVSAHRTPDYMFEYAETARERGLKVIIAGAGGAAHL--------PGMVAAKTNLPVIGVP  107 (181)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHTTTTTCCEEEEEECSSCCH--------HHHHHTTCCSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCeeEEEEccccChHHHHHHHHHHHhcCceEEEEeccccccc--------hhhHHhcCCCCEEEEe
Confidence            445566677778899999988765 3334   444455667889999887765443        4446778899999999


Q ss_pred             CCCC
Q 031202          158 GNPV  161 (164)
Q Consensus       158 ~~~~  161 (164)
                      -...
T Consensus       108 v~s~  111 (181)
T 4b4k_A          108 VQSK  111 (181)
T ss_dssp             CCCT
T ss_pred             cCCC
Confidence            7653

>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A*

Probab=94.85  E-value=0.11  Score=39.75  Aligned_cols=110  Identities=19%  Similarity=0.201  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCce
Q 031202           18 KAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAK   97 (164)
Q Consensus        18 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (164)
                      -.+|..|++.|...+.+|..+++.++.....             .....           ....+.+..+.+.+++.|..
T Consensus        52 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~-------------~~~r~-----------~Fl~~sL~~L~~~L~~~G~~  107 (482)
T 2xry_A           52 NWALLFSRAIAKEANVPVVVVFCLTDEFLEA-------------GIRQY-----------EFMLKGLQELEVSLSRKKIP  107 (482)
T ss_dssp             CHHHHHHHHHHHHHTSCEEEEEEECTTGGGS-------------CHHHH-----------HHHHHHHHHHHHHHHHTTCC
T ss_pred             cHHHHHHHHHHHHcCCcEEEEEEeChhhhcc-------------CHHHH-----------HHHHHHHHHHHHHHHHcCCc
Confidence            4578888887766677899999998763210             00000           12345677777777788888


Q ss_pred             EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           98 VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        98 ~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      +.  ++.|++.+.|.+.+++.+++.|+....... ...    .....+....+|++..+..
T Consensus       108 L~--v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~-~~~----~~~~~v~~~lgi~~~~~~~  161 (482)
T 2xry_A          108 SF--FLRGDPGEKISRFVKDYNAGTLVTDFSPLR-IKN----QWIEKVISGISIPFFEVDA  161 (482)
T ss_dssp             EE--EEESCHHHHHHHHHHHTTCSEEEEECCCSH-HHH----HHHHHHHHHCCSCEEEECC
T ss_pred             EE--EEeCCHHHHHHHHHHHcCCCEEEEecccch-hHH----HHHHHHHHHcCCEEEEEeC
Confidence            76  567999999999999999999998654322 111    1233444444888877764

>1o97_C Electron transferring flavoprotein beta-subunit; FAD binding; HET: AMP FAD; 1.6A {Methylophilus methylotrophus} SCOP: c.26.2.3 PDB: 1o95_C* 1o96_A* 1o94_C* 3clr_C* 3cls_C* 3clt_C* 3clu_C*

Probab=94.36  E-value=0.091  Score=36.99  Aligned_cols=31  Identities=19%  Similarity=0.152  Sum_probs=25.0

Q ss_pred             cCChhhHHHHHHHHHHhccCCC--eEEEEEEeC
Q 031202           12 DNSPNSKAALRWAADNLIDSGD--LIILIHVQP   42 (164)
Q Consensus        12 d~s~~s~~al~~a~~la~~~~~--~l~ll~v~~   42 (164)
                      ..++.+..+++.|.+|+...+.  +++++.+-+
T Consensus        34 ~lnp~d~~ale~A~~Lke~~g~~~~V~av~~G~   66 (264)
T 1o97_C           34 DLNEWDDFSLEEAMKIKESSDTDVEVVVVSVGP   66 (264)
T ss_dssp             EECHHHHHHHHHHHHHHHHCSSCCEEEEEEESC
T ss_pred             ccCHHHHHHHHHHHHHHHhcCCCceEEEEEeCc
Confidence            3457788999999999877666  899888874

>1k92_A Argininosuccinate synthase, argininosuccinate SY; N-type ATP pyrophosphatase, ligase; 1.60A {Escherichia coli} SCOP: c.26.2.1 d.210.1.1 PDB: 1k97_A* 1kp2_A* 1kp3_A*

Probab=94.16  E-value=1.1  Score=34.02  Aligned_cols=38  Identities=16%  Similarity=0.337  Sum_probs=30.9

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      ...++|+|+++|.-+|-.++.++.+    .+.+++.+++...
T Consensus         8 ~~~~KVvVA~SGGlDSSvll~~L~e----~G~eViavtvd~G   45 (455)
T 1k92_A            8 PVGQRIGIAFSGGLDTSAALLWMRQ----KGAVPYAYTANLG   45 (455)
T ss_dssp             CTTSEEEEECCSSHHHHHHHHHHHH----TTCEEEEEEEECC
T ss_pred             cCCCeEEEEEcChHHHHHHHHHHHH----cCCEEEEEEEEcC
Confidence            3457999999999999888887755    2789999999765

>1efp_B ETF, protein (electron transfer flavoprotein); electron transport, glutaric acidemia type II; HET: FAD AMP; 2.60A {Paracoccus denitrificans} SCOP: c.26.2.3

Probab=94.11  E-value=0.14  Score=35.74  Aligned_cols=30  Identities=20%  Similarity=0.141  Sum_probs=24.2

Q ss_pred             CChhhHHHHHHHHHHhccCCC--eEEEEEEeCC
Q 031202           13 NSPNSKAALRWAADNLIDSGD--LIILIHVQPP   43 (164)
Q Consensus        13 ~s~~s~~al~~a~~la~~~~~--~l~ll~v~~~   43 (164)
                      .++.+..|++.|.+|... +.  +++++.+-+.
T Consensus        35 lnp~d~~Ale~A~~Lke~-g~~~~V~av~~G~~   66 (252)
T 1efp_B           35 MNPFDEIAVEEAIRLKEK-GQAEEIIAVSIGVK   66 (252)
T ss_dssp             ECHHHHHHHHHHHHHHTT-TSCSEEEEEEEESG
T ss_pred             CCHHHHHHHHHHHHHHhc-CCCceEEEEEeCCh
Confidence            356788999999999876 66  8999988853

>3k32_A Uncharacterized protein MJ0690; predicted subunit of tRNA methyltransferase, methanocaldococcus jannaschii DSM , PSI- 2; 2.50A {Methanocaldococcus jannaschii}

Probab=94.11  E-value=0.64  Score=31.15  Aligned_cols=40  Identities=18%  Similarity=-0.017  Sum_probs=28.8

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ||.+++++|+++|..+|-.++..+.    ..+.++..+|+....
T Consensus         3 ~m~~~kv~v~~SGG~DS~~ll~ll~----~~g~~v~~~~v~~~~   42 (203)
T 3k32_A            3 AMKLMDVHVLFSGGKDSSLSAVILK----KLGYNPHLITINFGV   42 (203)
T ss_dssp             ---CEEEEEECCCSHHHHHHHHHHH----HTTEEEEEEEEECSS
T ss_pred             cccCCeEEEEEECcHHHHHHHHHHH----HcCCCeEEEEEeCCC
Confidence            4567899999999999987765543    356789999987553

>3oow_A Phosphoribosylaminoimidazole carboxylase,catalyic; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.75A {Francisella tularensis subsp} SCOP: c.23.8.1 PDB: 3opq_A*

Probab=94.09  E-value=0.52  Score=30.59  Aligned_cols=71  Identities=15%  Similarity=0.213  Sum_probs=49.6

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++.+.++..|+.++..|..- ...+.+.+++   ++.+++.||.+.-....        .+.-+.-.+++||+=||
T Consensus        19 ~v~~~a~~~l~~~gi~~ev~V~SaHRtp~~l~~~~~~~~~~g~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   90 (166)
T 3oow_A           19 STMKECCDILDNLGIGYECEVVSAHRTPDKMFDYAETAKERGLKVIIAGAGGAAH--------LPGMVAAKTTLPVLGVP   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEECCTTTCHHHHHHHHHHTTTTTCCEEEEEECSSCC--------HHHHHHHTCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEcCcCCHHHHHHHHHHHHhCCCcEEEEECCcchh--------hHHHHHhccCCCEEEee
Confidence            445566667778899999888765 4445555554   44678888888765543        34457778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        91 ~~~   93 (166)
T 3oow_A           91 VKS   93 (166)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            654

>2nz2_A Argininosuccinate synthase; amino-acid biosynthesis, aspartate, citrulline, ST genomics, structural genomics consortium, SGC, ligase; HET: CIR; 2.40A {Homo sapiens}

Probab=93.67  E-value=0.74  Score=34.57  Aligned_cols=39  Identities=18%  Similarity=0.250  Sum_probs=29.4

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      |+..++++|+++|.-+|-.++.++.+.    +.+++.+|+...
T Consensus         2 ~~~~~kVvvalSGGlDSsvll~lL~e~----G~eV~av~vd~g   40 (413)
T 2nz2_A            2 MSSKGSVVLAYSGGLDTSCILVWLKEQ----GYDVIAYLANIG   40 (413)
T ss_dssp             ---CEEEEEECCSSHHHHHHHHHHHHT----TEEEEEEEEESS
T ss_pred             CCCCCeEEEEEcChHHHHHHHHHHHHc----CCEEEEEEEECC
Confidence            545579999999999998877776552    778999998765

>4grd_A N5-CAIR mutase, phosphoribosylaminoimidazole carboxylase catalyti; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures; 1.85A {Burkholderia cenocepacia}

Probab=93.67  E-value=0.4  Score=31.32  Aligned_cols=71  Identities=17%  Similarity=0.244  Sum_probs=48.5

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhH---HHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREK---LCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~---I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++.+.+++.|++++..|..- ...+.   +.+.+++.+++.||.+......+        +.-+.-.+++||+=||
T Consensus        26 ~v~~~a~~~l~~~gi~~ev~V~saHR~p~~l~~~~~~a~~~g~~ViIa~AG~aahL--------pgvvA~~t~~PVIgVP   97 (173)
T 4grd_A           26 DVMKHAVAILQEFGVPYEAKVVSAHRMPDEMFDYAEKARERGLRAIIAGAGGAAHL--------PGMLAAKTTVPVLGVP   97 (173)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHHTTTTCSEEEEEEESSCCH--------HHHHHHHCCSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEccccCHHHHHHHHHHHHhcCCeEEEEeccccccc--------hhhheecCCCCEEEEE
Confidence            345556667778899999888764 33344   44555567889888887655433        3446667899999998


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      -..
T Consensus        98 v~~  100 (173)
T 4grd_A           98 VAS  100 (173)
T ss_dssp             ECC
T ss_pred             cCC
Confidence            544

>1ni5_A Putative cell cycle protein MESJ; structural genomics, ATPase, PP-type, putative cell cycle PR PSI, protein structure initiative; 2.65A {Escherichia coli} SCOP: b.153.1.2 c.26.2.5 d.229.1.1

Probab=93.65  E-value=0.5  Score=35.65  Aligned_cols=66  Identities=14%  Similarity=0.132  Sum_probs=50.6

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhcc-CCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLID-SGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      -.+|+|+++|..+|-.++..+..+... .+.++.++||......                                ...+
T Consensus        13 ~~~vlVa~SGG~DS~~Ll~ll~~~~~~~~g~~v~avhvdhglr~--------------------------------~s~~   60 (433)
T 1ni5_A           13 SRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSA--------------------------------NADA   60 (433)
T ss_dssp             CSEEEEECCSBHHHHHHHHHHHHHHTTSTTCEEEEEEECCSCCS--------------------------------SHHH
T ss_pred             CCEEEEEEcchHHHHHHHHHHHHHHHhcCCCeEEEEEEECCCCc--------------------------------ccHH
Confidence            468999999999999888888887766 7889999999765421                                1233


Q ss_pred             HHHHHHHHhhhcCceEEEE
Q 031202           83 VLDILDTLSRTKGAKVVAK  101 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~  101 (164)
                      ..+.+.+.|...|+++...
T Consensus        61 ~~~~v~~~~~~lgi~~~v~   79 (433)
T 1ni5_A           61 WVTHCENVCQQWQVPLVVE   79 (433)
T ss_dssp             HHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHHHHHcCCcEEEE
Confidence            4567778888889887764

>2ywx_A Phosphoribosylaminoimidazole carboxylase catalyti; rossmann fold, structural genomics, NPPSFA; 2.31A {Methanocaldococcus jannaschii}

Probab=93.57  E-value=0.68  Score=29.76  Aligned_cols=69  Identities=14%  Similarity=0.135  Sum_probs=51.1

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      ...+++...++..|++++..|..- ...+.+.+++++...+.||.+......        .+.-+.-.+++||+=||.
T Consensus        13 ~v~~~a~~~l~~~gi~~dv~V~saHR~p~~~~~~~~~a~~~ViIa~AG~aa~--------Lpgvva~~t~~PVIgVP~   82 (157)
T 2ywx_A           13 KIAEKAVNILKEFGVEFEVRVASAHRTPELVEEIVKNSKADVFIAIAGLAAH--------LPGVVASLTTKPVIAVPV   82 (157)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHCCCSEEEEEEESSCC--------HHHHHHTTCSSCEEEEEE
T ss_pred             HHHHHHHHHHHHcCCCeEEEEEcccCCHHHHHHHHHhcCCCEEEEEcCchhh--------hHHHHHhccCCCEEEecC
Confidence            345566667778899999988764 667888888887665888887765543        345577788999999986

>1efv_B Electron transfer flavoprotein; electron transport, glutaric acidemia type II; HET: FAD AMP; 2.10A {Homo sapiens} SCOP: c.26.2.3 PDB: 1t9g_S* 2a1u_B* 2a1t_S*

Probab=93.57  E-value=0.11  Score=36.41  Aligned_cols=28  Identities=18%  Similarity=0.098  Sum_probs=22.6

Q ss_pred             hhhHHHHHHHHHHhccCCC--eEEEEEEeCC
Q 031202           15 PNSKAALRWAADNLIDSGD--LIILIHVQPP   43 (164)
Q Consensus        15 ~~s~~al~~a~~la~~~~~--~l~ll~v~~~   43 (164)
                      +.+..|++.|.+|... +.  +++++.+-++
T Consensus        40 p~d~~Ale~A~~Lke~-g~~~~V~av~~G~~   69 (255)
T 1efv_B           40 PFCEIAVEEAVRLKEK-KLVKEVIAVSCGPA   69 (255)
T ss_dssp             HHHHHHHHHHHHHHHT-TSCSEEEEEEEEST
T ss_pred             HHHHHHHHHHHHHHhc-CCCceEEEEEeCCh
Confidence            4567999999999776 66  8999988854

>3kcq_A Phosphoribosylglycinamide formyltransferase; structural genomics, niaid, seattle structural center for infectious disease, ssgcid; 2.20A {Anaplasma phagocytophilum} SCOP: c.65.1.0

Probab=93.46  E-value=1.1  Score=30.56  Aligned_cols=88  Identities=16%  Similarity=0.100  Sum_probs=51.8

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |...++|.|.+.++.....++-.+.   +..+.+..++.|+......                                 
T Consensus         5 ~~~~~ri~vl~SG~gsnl~all~~~---~~~~~~~~I~~Vis~~~~a---------------------------------   48 (215)
T 3kcq_A            5 MKKELRVGVLISGRGSNLEALAKAF---STEESSVVISCVISNNAEA---------------------------------   48 (215)
T ss_dssp             --CCEEEEEEESSCCHHHHHHHHHT---CCC-CSEEEEEEEESCTTC---------------------------------
T ss_pred             CCCCCEEEEEEECCcHHHHHHHHHH---HcCCCCcEEEEEEeCCcch---------------------------------
Confidence            4556799999999876655544443   2222234455555443110                                 


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      . .    .+.+.++|+++...-...-..+++.+..++.++|++|+....
T Consensus        49 ~-~----l~~A~~~gIp~~~~~~~~~~~~~~~~~L~~~~~Dlivlagy~   92 (215)
T 3kcq_A           49 R-G----LLIAQSYGIPTFVVKRKPLDIEHISTVLREHDVDLVCLAGFM   92 (215)
T ss_dssp             T-H----HHHHHHTTCCEEECCBTTBCHHHHHHHHHHTTCSEEEESSCC
T ss_pred             H-H----HHHHHHcCCCEEEeCcccCChHHHHHHHHHhCCCEEEEeCCc
Confidence            0 1    245677798877421111123789999999999999997653

>1sur_A PAPS reductase; assimilatory sulfate reduction, 3-phospho-adenylyl-sulfate reductase, oxidoreductase; 2.00A {Escherichia coli} SCOP: c.26.2.2

Probab=93.43  E-value=1  Score=30.28  Aligned_cols=87  Identities=15%  Similarity=0.095  Sum_probs=58.2

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+|+|+++|..+|..++..+.++.    .++.++|+.....                                  ..+..
T Consensus        45 ~~v~Va~SGGkDS~vLL~ll~~~~----~~v~~v~vd~g~~----------------------------------~~e~~   86 (215)
T 1sur_A           45 GEYVLSSSFGIQAAVSLHLVNQIR----PDIPVILTDTGYL----------------------------------FPETY   86 (215)
T ss_dssp             SEEEEECCCCTTHHHHHHHHHHHS----TTCEEEEEECSCB----------------------------------CHHHH
T ss_pred             CCEEEEecCCHHHHHHHHHHHHhC----CCCeEEEeeCCCC----------------------------------CHHHH
Confidence            389999999999988888776653    4678888876532                                  12345


Q ss_pred             HHHHHHhhhcCceEEEEEeeCChh--------------------------hHHHHHHHhcCCCEEEEeecC
Q 031202           85 DILDTLSRTKGAKVVAKVYWGDPR--------------------------EKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g~~~--------------------------~~I~~~a~~~~~dliv~g~~~  129 (164)
                      +.+++.+...|+++...-......                          ..+.+.+++.+++.++.|.+.
T Consensus        87 ~~v~~~~~~~gi~~~v~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~K~~~l~~~~~~~~~~~i~~G~r~  157 (215)
T 1sur_A           87 RFIDELTDKLKLNLKVYRATESAAWQEARYGKLWEQGVEGIEKYNDINKVEPMNRALKELNAQTWFAGLRR  157 (215)
T ss_dssp             HHHHHHHHHTTCEEEEEECSSCHHHHHHHHCCGGGSHHHHHHHHHHHHTHHHHHHHHHHTTEEEEECCCCT
T ss_pred             HHHHHHHHHhCCcEEEEeCCCCHHHHHHhcCCCCCCCccHHHHHHHHHHHHHHHHHHHhcCCceEEEEeeh
Confidence            666777778888877542211110                          123456677777889999764

>1xmp_A PURE, phosphoribosylaminoimidazole carboxylase; purine biosynthesis, spine, lyase; 1.80A {Bacillus anthracis} SCOP: c.23.8.1

Probab=93.32  E-value=0.78  Score=29.87  Aligned_cols=71  Identities=15%  Similarity=0.192  Sum_probs=49.6

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHH---hcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVE---DLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~---~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ...+.+.++++   +.+++.||.+......        .+.-+.-.++.||+=||
T Consensus        25 ~v~~~a~~~L~~~Gi~~dv~V~SaHR~p~~l~~~~~~a~~~g~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   96 (170)
T 1xmp_A           25 ETMKYACDILDELNIPYEKKVVSAHRTPDYMFEYAETARERGLKVIIAGAGGAAH--------LPGMVAAKTNLPVIGVP   96 (170)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHTTTTTCCEEEEEEESSCC--------HHHHHHTTCCSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHHHhCCCcEEEEECCchhh--------hHHHHHhccCCCEEEee
Confidence            345566667778899999888764 45556666655   4568888887765543        34457778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        97 ~~~   99 (170)
T 1xmp_A           97 VQS   99 (170)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            654

>3kuu_A Phosphoribosylaminoimidazole carboxylase catalyti PURE; 3-layer (ABA) sandwich, rossmann fold, csgid, lyase, structu genomics; 1.41A {Yersinia pestis} SCOP: c.23.8.1 PDB: 1d7a_A* 1qcz_A 2ate_A* 2nsl_A* 2nsh_A* 2nsj_A*

Probab=93.03  E-value=0.84  Score=29.85  Aligned_cols=71  Identities=14%  Similarity=0.189  Sum_probs=49.4

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++.+.++..|++++..|..- ...+.+.+++   ++.+++.||.+.-....        .+.-|.-.++.||+=||
T Consensus        26 ~v~~~a~~~L~~~Gi~~ev~V~SaHR~p~~~~~~~~~a~~~g~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   97 (174)
T 3kuu_A           26 ATMQFAADVLTTLNVPFHVEVVSAHRTPDRLFSFAEQAEANGLHVIIAGNGGAAH--------LPGMLAAKTLVPVLGVP   97 (174)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHTTTTTCSEEEEEEESSCC--------HHHHHHHTCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEcccCCHHHHHHHHHHHHhCCCcEEEEECChhhh--------hHHHHHhccCCCEEEee
Confidence            445566667778899999888764 4445555554   45778988887665543        34457778899999998


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      -..
T Consensus        98 ~~~  100 (174)
T 3kuu_A           98 VQS  100 (174)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            643

>3trh_A Phosphoribosylaminoimidazole carboxylase carboxyltransferase subunit; purines, pyrimidines, nucleosides, nucleotides, lyase; 2.20A {Coxiella burnetii}

Probab=92.94  E-value=0.94  Score=29.47  Aligned_cols=71  Identities=8%  Similarity=0.083  Sum_probs=49.0

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHH---HHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKL---CDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I---~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ...+.+   .+.+++.+++.||.+.-....        .+.-+.-.++.||+=||
T Consensus        20 ~v~~~a~~~l~~~gi~~ev~V~SaHR~p~~~~~~~~~a~~~g~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   91 (169)
T 3trh_A           20 STMETAFTELKSLGIPFEAHILSAHRTPKETVEFVENADNRGCAVFIAAAGLAAH--------LAGTIAAHTLKPVIGVP   91 (169)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHHHHTTEEEEEEEECSSCC--------HHHHHHHTCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEcccCCHHHHHHHHHHHHhCCCcEEEEECChhhh--------hHHHHHhcCCCCEEEee
Confidence            345566667778899999888764 334444   444556788888877665443        34557778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      -..
T Consensus        92 ~~~   94 (169)
T 3trh_A           92 MAG   94 (169)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            653

>3g40_A Na-K-CL cotransporter; alpha/beta fold 10-stranded twisted beta sheet, transport protein; 1.90A {Methanosarcina acetivorans}

Probab=92.77  E-value=0.065  Score=38.09  Aligned_cols=101  Identities=10%  Similarity=0.030  Sum_probs=63.1

Q ss_pred             hhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcC
Q 031202           16 NSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKG   95 (164)
Q Consensus        16 ~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (164)
                      +..-++-.|..|...++++|.++.|++...                                 ..+++...+.+.....-
T Consensus       177 Ng~LmlllAylL~~nW~A~I~L~~vV~de~---------------------------------a~~~a~~~l~~Lv~~~R  223 (294)
T 3g40_A          177 NMDLALLIAYKLKSNWKASLSFMTFAPTAI---------------------------------QAQAAENFLQSLAELAR  223 (294)
T ss_dssp             TTHHHHHHHHHHHHHHTCEEEEEEECSSHH---------------------------------HHHHHHHHHHHHHHHHT
T ss_pred             chhHHHHHHHHHhhCcCCeEEEEEecCCHH---------------------------------HHHHHHHHHHHHHHHhc
Confidence            344566667777777899999999987642                                 12334444444444443


Q ss_pred             ceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           96 AKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        96 ~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      +..+..+.. .+..+|++.+  .++|++++|-.....+.      ..++++..+...-+.+++
T Consensus       224 i~a~~~vv~-~~F~~il~~s--~~ADL~flGl~~~~df~------~~~~~~~~~~ssc~f~~d  277 (294)
T 3g40_A          224 IPNVKMQVL-RENPIKSSKL--PFASLHIFSLDPNPDLD------LARHLMEKAGSSCIFALD  277 (294)
T ss_dssp             CCSCEEEEE-SSCTTTSSSC--CCCSEEEEECCSSCCHH------HHHHHHHHHTSEEEEEEC
T ss_pred             CCceEEEec-CchHHHHhhC--cCCCEEEEcCCCCCcHH------HHHHHHHhcCCeEEEEec
Confidence            333323334 6666777665  55799999986655443      356677777666666654

>3bl5_A Queuosine biosynthesis protein QUEC; PREQ1 biosynthesis, RNA modification, tRNA, hydrolase; 2.95A {Bacillus subtilis}

Probab=92.61  E-value=1.5  Score=29.30  Aligned_cols=38  Identities=16%  Similarity=0.186  Sum_probs=28.6

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      |+ .++++|.++|..+|-.++..+.+.    +.++..+|+...
T Consensus         1 m~-~~~v~v~lSGG~DS~~ll~ll~~~----~~~v~~~~~~~~   38 (219)
T 3bl5_A            1 MK-KEKAIVVFSGGQDSTTCLLWALKE----FEEVETVTFHYN   38 (219)
T ss_dssp             ---CCEEEEECCSSHHHHHHHHHHHHH----CSEEEEEEEESS
T ss_pred             CC-CCCEEEEccCcHHHHHHHHHHHHc----CCceEEEEEeCC
Confidence            54 468999999999998777766553    468889998865

>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine dimers, UV damaged DNA, DNA repai flavoprotein; HET: FAD; 1.71A {Oryza sativa japonica group}

Probab=92.36  E-value=0.29  Score=37.79  Aligned_cols=83  Identities=20%  Similarity=0.099  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCce
Q 031202           18 KAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAK   97 (164)
Q Consensus        18 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (164)
                      -.||..|++.|...+.+|..+++.++.....        +   .....           .....+.+..+.+.++..|..
T Consensus        53 N~AL~~A~~~a~~~~~pVl~vfildp~~~~~--------~---~~~~r-----------~~FL~~sL~dL~~~L~~lG~~  110 (506)
T 3umv_A           53 NWALLHAAGLAAASASPLAVAFALFPRPFLL--------S---ARRRQ-----------LGFLLRGLRRLAADAAARHLP  110 (506)
T ss_dssp             CHHHHHHHHHHHHHTCCEEEEEECCCTTCGG--------G---CCHHH-----------HHHHHHHHHHHHHHHHHTTCC
T ss_pred             cHHHHHHHHhhhhcCCCEEEEEeccchhhcc--------C---CCHHH-----------HHHHHHHHHHHHHHHHHcCCc
Confidence            3688889888877788899999998762110        0   00000           022346677777778788887


Q ss_pred             EEEEEeeCChhhHHHHHHHhcCCCEEEE
Q 031202           98 VVAKVYWGDPREKLCDAVEDLKLDTLVV  125 (164)
Q Consensus        98 ~~~~v~~g~~~~~I~~~a~~~~~dliv~  125 (164)
                      .-  ++.|++.+. .+.+++.+++.|+.
T Consensus       111 L~--v~~G~p~~v-~~L~~~~~a~~V~~  135 (506)
T 3umv_A          111 FF--LFTGGPAEI-PALVQRLGASTLVA  135 (506)
T ss_dssp             EE--EESSCTTHH-HHHHHHTTCSEEEE
T ss_pred             eE--EEecChHHH-HHHHHhcCCCEEEe
Confidence            76  668999999 99999999999986

>3lp6_A Phosphoribosylaminoimidazole carboxylase catalyti; alpha and beta protein, structural genomics, PSI-2, protein initiative; 1.70A {Mycobacterium tuberculosis} SCOP: c.23.8.0

Probab=92.36  E-value=0.82  Score=29.90  Aligned_cols=70  Identities=13%  Similarity=0.096  Sum_probs=48.7

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-Ch---hhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DP---REKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~---~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ..   ...+.+.+++.+++.||.+.-....        .+.-+.-.++.||+=||
T Consensus        21 ~v~~~a~~~L~~~gi~~ev~V~SaHR~p~~~~~~~~~a~~~g~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   92 (174)
T 3lp6_A           21 PVMADAAAALAEFDIPAEVRVVSAHRTPEAMFSYARGAAARGLEVIIAGAGGAAH--------LPGMVAAATPLPVIGVP   92 (174)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHHHHHTCCEEEEEEESSCC--------HHHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEecCchhh--------hHHHHHhccCCCEEEee
Confidence            345566667778899999887764 33   4455555667888988887765543        34446667899999998


Q ss_pred             CC
Q 031202          158 GN  159 (164)
Q Consensus       158 ~~  159 (164)
                      -.
T Consensus        93 ~~   94 (174)
T 3lp6_A           93 VP   94 (174)
T ss_dssp             EC
T ss_pred             CC
Confidence            64

>3zqu_A Probable aromatic acid decarboxylase; lyase; HET: FNR; 1.50A {Pseudomonas aeruginosa} SCOP: c.34.1.0

Probab=92.14  E-value=0.32  Score=32.94  Aligned_cols=38  Identities=13%  Similarity=0.157  Sum_probs=31.4

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      |+..++|++++.|+..+.++.+..-.|.+ .+.+++++-
T Consensus         1 m~~~k~IllgvTGaiaa~k~~~ll~~L~~-~g~eV~vv~   38 (209)
T 3zqu_A            1 MSGPERITLAMTGASGAQYGLRLLDCLVQ-EEREVHFLI   38 (209)
T ss_dssp             CCSCSEEEEEECSSSCHHHHHHHHHHHHH-TTCEEEEEE
T ss_pred             CCCCCEEEEEEECHHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence            78889999999999999998888777655 478777654

>1u11_A PURE (N5-carboxyaminoimidazole ribonucleotide MUT; acidophIle, protein stability, lyase; HET: CIT; 1.55A {Acetobacter aceti} SCOP: c.23.8.1 PDB: 2fwj_A* 2fw1_A* 2fwb_A 2fwa_A 2fw9_A 2fw7_A 2fw6_A 2fwp_A* 2fwi_A* 2fw8_A

Probab=91.94  E-value=1  Score=29.69  Aligned_cols=71  Identities=17%  Similarity=0.199  Sum_probs=49.2

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHH---hcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVE---DLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~---~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ...+.+.++++   +.+++.||.+......+        +.-+.-.++.||+=||
T Consensus        35 ~v~~~a~~~L~~~Gi~~dv~V~SaHR~p~~l~~~~~~a~~~g~~ViIa~AG~aa~L--------pgvvA~~t~~PVIgVP  106 (182)
T 1u11_A           35 ETMRHADALLTELEIPHETLIVSAHRTPDRLADYARTAAERGLNVIIAGAGGAAHL--------PGMCAAWTRLPVLGVP  106 (182)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHTTTTTCCEEEEEEESSCCH--------HHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCeEEEEEcccCCHHHHHHHHHHHHhCCCcEEEEecCchhhh--------HHHHHhccCCCEEEee
Confidence            445566667778899999888764 45566666655   45688888877655433        4446677899999998


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      -..
T Consensus       107 ~~~  109 (182)
T 1u11_A          107 VES  109 (182)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            654

>2hma_A Probable tRNA (5-methylaminomethyl-2-thiouridylat methyltransferase; alpha-beta, beta barrel, structural genomics, PSI-2; HET: MSE SAM; 2.41A {Streptococcus pneumoniae}

Probab=91.86  E-value=1.7  Score=32.14  Aligned_cols=96  Identities=16%  Similarity=0.127  Sum_probs=59.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      .++|+|+++|..+|-.++..+.+    .+-++..+|+........               ...           ....+-
T Consensus         9 ~~kVlVa~SGGvDSsv~a~lL~~----~G~~V~~v~~~~~~~~~~---------------~~~-----------c~~~~d   58 (376)
T 2hma_A            9 KTRVVVGMSGGVDSSVTALLLKE----QGYDVIGIFMKNWDDTDE---------------NGV-----------CTATED   58 (376)
T ss_dssp             GSEEEEECCSSHHHHHHHHHHHH----TTCEEEEEEEECCCCCC------------------------------CHHHHH
T ss_pred             CCeEEEEEeCHHHHHHHHHHHHH----cCCcEEEEEEECCCcccc---------------ccc-----------CCCHHH
Confidence            35899999999999776665544    478899999875432100               000           001223


Q ss_pred             HHHHHHHhhhcCceEEEEEee-----------------CC------------hhhHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVYW-----------------GD------------PREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~-----------------g~------------~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      .+.+++.|+..|+++...-..                 |.            -...+.++|++.++|.|+.|++.
T Consensus        59 ~~~a~~va~~lGIp~~vv~~~~~~~~~v~~~~l~~y~~G~tpnpc~~C~r~ik~~~l~~~A~~~G~d~IatGH~a  133 (376)
T 2hma_A           59 YKDVVAVADQIGIPYYSVNFEKEYWDRVFEYFLAEYRAGRTPNPDVMCNKEIKFKAFLDYAITLGADYVATGHYA  133 (376)
T ss_dssp             HHHHHHHHHHHTCCEEEEECHHHHHHHTHHHHHHHHHTTCCCCHHHHHHHHTTTTHHHHHHHTTTCSEEECCCSE
T ss_pred             HHHHHHHHHHhCCcEEEEeChHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHhCCCCEEEECcch
Confidence            455666666667766543211                 10            13567788999999999999753

>3ors_A N5-carboxyaminoimidazole ribonucleotide mutase; isomerase, isomerase,biosynthetic protein; 1.45A {Staphylococcus aureus subsp}

Probab=91.75  E-value=1.2  Score=28.89  Aligned_cols=71  Identities=11%  Similarity=0.127  Sum_probs=48.6

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHH---HHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDA---VEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~---a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ...+.+.++   +++.+++.||.+.-....+        +.-+.-.++.||+=||
T Consensus        17 ~v~~~a~~~l~~~gi~~ev~V~SaHR~p~~~~~~~~~a~~~g~~ViIa~AG~aa~L--------pgvvA~~t~~PVIgVP   88 (163)
T 3ors_A           17 KIMQESCNMLDYFEIPYEKQVVSAHRTPKMMVQFASEARERGINIIIAGAGGAAHL--------PGMVASLTTLPVIGVP   88 (163)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHTTTTTCCEEEEEEESSCCH--------HHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEEEECCcCCHHHHHHHHHHHHhCCCcEEEEECCchhhh--------HHHHHhccCCCEEEee
Confidence            345566667778899999888764 444555555   4456789888876655433        4446667899999998


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      -..
T Consensus        89 ~~~   91 (163)
T 3ors_A           89 IET   91 (163)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            644

>1o4v_A Phosphoribosylaminoimidazole mutase PURE; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 1.77A {Thermotoga maritima} SCOP: c.23.8.1

Probab=91.53  E-value=1.3  Score=29.27  Aligned_cols=71  Identities=14%  Similarity=0.229  Sum_probs=48.7

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++...++..|++++..|..- ...+.+.+++   ++.+++.||.+....+.+        +.-+.-.++.||+=||
T Consensus        27 ~v~~~a~~~L~~~Gi~~dv~V~SaHR~p~~l~~~~~~a~~~g~~ViIa~AG~aa~L--------pgvvA~~t~~PVIgVP   98 (183)
T 1o4v_A           27 PVMKQAAEILEEFGIDYEITIVSAHRTPDRMFEYAKNAEERGIEVIIAGAGGAAHL--------PGMVASITHLPVIGVP   98 (183)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEECCTTTCHHHHHHHHHHTTTTTCCEEEEEEESSCCH--------HHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCeEEEEEcccCCHHHHHHHHHHHHhCCCcEEEEecCccccc--------HHHHHhccCCCEEEee
Confidence            445566667778899999988764 4445555554   456788888877655433        4446667899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        99 ~~~  101 (183)
T 1o4v_A           99 VKT  101 (183)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            654

>2oq2_A Phosphoadenosine phosphosulfate reductase; sulfate reduction, PAPS reductase, oxidoreductase; HET: A3P; 2.10A {Saccharomyces cerevisiae}

Probab=91.08  E-value=2.1  Score=29.83  Aligned_cols=40  Identities=3%  Similarity=-0.171  Sum_probs=31.6

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      +.+++|+++|..+|..++..+.++... +.++.++|+....
T Consensus        41 ~~~v~va~SGGkDS~vLL~ll~~~~~~-~~~i~vv~iDtg~   80 (261)
T 2oq2_A           41 FPHLFQTTAFGLTGLVTIDMLSKLSEK-YYMPELLFIDTLH   80 (261)
T ss_dssp             CSSEEEECCCCHHHHHHHHHHHHHTTT-SCCCEEEEECCSC
T ss_pred             CCCEEEEecCCHHHHHHHHHHHHhCcc-CCCeeEEEecCCC
Confidence            457999999999999888888777554 5678888886554

>3rjz_A N-type ATP pyrophosphatase superfamily; structural genomics, PSI-biology, northeast structural genom consortium, NESG, alpha-beta protein; 2.30A {Pyrococcus furiosus} SCOP: c.26.2.1 PDB: 3h7e_A 3rk0_A* 3rk1_A* 1ru8_A 2d13_A

Probab=91.00  E-value=2.5  Score=29.18  Aligned_cols=96  Identities=21%  Similarity=0.268  Sum_probs=55.0

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |+...++++.++|..+|-.++-.+    +..|-++..++...+.....                 +     ..+      
T Consensus         1 ~~~~MKvvvl~SGGkDSs~al~~l----~~~G~eV~~L~~~~~~~~~s-----------------~-----~~h------   48 (237)
T 3rjz_A            1 MVGLADVAVLYSGGKDSNYALYWA----IKNRFSVKFLVTMVSENEES-----------------Y-----MYH------   48 (237)
T ss_dssp             --CCSEEEEECCSSHHHHHHHHHH----HHTTCEEEEEEEEECC------------------------------------
T ss_pred             CCCCCEEEEEecCcHHHHHHHHHH----HHcCCeEEEEEEEcCCCCCc-----------------c-----ccC------
Confidence            555458999999999997666544    44577787776554432100                 0     000      


Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeC---ChhhHHHHHHHhcCCCEEEEeec
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWG---DPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g---~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      ..-.+.++.++...|++....-..|   +..+.+.+..++.+++.+|.|.-
T Consensus        49 ~~~~e~a~~~A~~LGIpl~~v~~~g~~~~e~e~l~~~l~~~~i~~vv~Gdi   99 (237)
T 3rjz_A           49 TINANLTDLQARALGIPLVKGFTQGEKEKEVEDLKRVLSGLKIQGIVAGAL   99 (237)
T ss_dssp             CCSSSHHHHHHHHHTCCEEEEEC------CHHHHHHHHTTSCCSEEECC--
T ss_pred             CccHHHHHHHHHHcCCCEEEEECCCCchHHHHHHHHHHHhcCCcEEEECCc
Confidence            0112344556666788776543333   34677777777778999999864

>2ywb_A GMP synthase [glutamine-hydrolyzing]; GMP synthetase, XMP binding, ATP binding, purine nucleotide biosynthetic pathway, structural genomics; 2.10A {Thermus thermophilus} PDB: 2ywc_A*

Probab=90.47  E-value=4  Score=31.42  Aligned_cols=35  Identities=14%  Similarity=0.067  Sum_probs=28.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      ++++++++|..+|..++..+.+.    +.+++.+|+...
T Consensus       210 ~kvvvalSGGvDSsvla~ll~~~----g~~v~av~vd~g  244 (503)
T 2ywb_A          210 DRVLLAVSGGVDSSTLALLLAKA----GVDHLAVFVDHG  244 (503)
T ss_dssp             SEEEEEECSSHHHHHHHHHHHHH----TCEEEEEEEECS
T ss_pred             ccEEEEecCCcchHHHHHHHHHc----CCeEEEEEEeCC
Confidence            58999999999998777766554    789999998754

>2wsi_A FAD synthetase; transferase, nucleotidyltransferase, nucleotide-binding; HET: FAD; 1.90A {Saccharomyces cerevisiae}

Probab=90.45  E-value=2  Score=30.75  Aligned_cols=91  Identities=9%  Similarity=0.102  Sum_probs=60.7

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhcc------------------CCCeEEEEEEeCCCCCcccccccccCCCCCCChhhH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLID------------------SGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEF   66 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~------------------~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~   66 (164)
                      .+|+|+++|..+|..++..+......                  .+.++.++|+.....                     
T Consensus        54 ~~i~vafSGGKDS~VLL~L~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~vv~iDtg~~---------------------  112 (306)
T 2wsi_A           54 GEISFSYNGGKDCQVLLLLYLSCLWEYFFIKAQNSQFDFEFQSFPMQRLPTVFIDQEET---------------------  112 (306)
T ss_dssp             SSEEEECCSCHHHHHHHHHHHHHHHHHHHHHHHHC--------CCCCCEEEEECCCTTC---------------------
T ss_pred             CCEEEEecCCHHHHHHHHHHHHHHhhhcccccccccccccccccCCCCeeEEEEeCCCC---------------------
Confidence            47999999999998888877665311                  245788888875532                     


Q ss_pred             HHhhhhhhhcCCCChhHHHHHHHHhhhcCceEEEEEe----eCChhhHHHHHHHhc-CCCEEEEeecC
Q 031202           67 REINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVY----WGDPREKLCDAVEDL-KLDTLVVGSRG  129 (164)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~----~g~~~~~I~~~a~~~-~~dliv~g~~~  129 (164)
                                   ..+..+.+.+.+...|+++...-.    .....+.+.++++.. ..+.+++|.+.
T Consensus       113 -------------fpet~~fv~~~~~~ygl~l~v~~~~~~~~~~l~~~~~~~~k~~p~~~aii~G~Rr  167 (306)
T 2wsi_A          113 -------------FPTLENFVLETSERYCLSLYESQRQSGASVNMADAFRDFIKIYPETEAIVIGIRH  167 (306)
T ss_dssp             -------------CHHHHHHHHHHHHHTTEEEEECCC-----CCHHHHHHHHHHHCTTCCEEECCCCC
T ss_pred             -------------CHHHHHHHHHHHHHcCCCEEEEeCCccccccHHHHHHHHHhhCCCCcEEEEEEec
Confidence                         245566666667777887754211    124556677777663 57899999764

>3rg8_A Phosphoribosylaminoimidazole carboxylase, PURE PR; purine biosynthesis, lyase; 1.74A {Treponema denticola} SCOP: c.23.8.0 PDB: 3rgg_A*

Probab=90.37  E-value=1.7  Score=28.00  Aligned_cols=71  Identities=10%  Similarity=0.036  Sum_probs=48.1

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHH---hc-CCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVE---DL-KLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~---~~-~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      ...+++...++..|++++..|..- ...+.+.++++   +. +++.||.+.-....        .+.-+.-.++.||+=|
T Consensus        16 ~v~~~a~~~l~~~gi~~ev~V~saHR~p~~~~~~~~~a~~~~~~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgV   87 (159)
T 3rg8_A           16 GHAEKIASELKTFGIEYAIRIGSAHKTAEHVVSMLKEYEALDRPKLYITIAGRSNA--------LSGFVDGFVKGATIAC   87 (159)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEECCTTTCHHHHHHHHHHHHTSCSCEEEEEECCSSCC--------HHHHHHHHSSSCEEEC
T ss_pred             HHHHHHHHHHHHcCCCEEEEEEcccCCHHHHHHHHHHhhhcCCCcEEEEECCchhh--------hHHHHHhccCCCEEEe
Confidence            345566667778899999887764 44555555544   33 57888888665543        3444666789999999


Q ss_pred             eCCC
Q 031202          157 KGNP  160 (164)
Q Consensus       157 ~~~~  160 (164)
                      |...
T Consensus        88 P~~~   91 (159)
T 3rg8_A           88 PPPS   91 (159)
T ss_dssp             CCCC
T ss_pred             eCCC
Confidence            8543

>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A*

Probab=90.30  E-value=0.94  Score=35.25  Aligned_cols=129  Identities=13%  Similarity=0.115  Sum_probs=79.1

Q ss_pred             EEEEEecCC--hhhHHHHHHHHHHhcc--CCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            6 TVGVGMDNS--PNSKAALRWAADNLID--SGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         6 ~ILv~~d~s--~~s~~al~~a~~la~~--~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      .+|+=+..+  -.+-.+|..|++.+..  .+.+|..+++.++.....          ........           ....
T Consensus        30 ~vl~WfrrDLRl~DN~aL~~A~~~~~~~~~~~pv~~vfi~dp~~~~~----------~~~~~~r~-----------~Fl~   88 (543)
T 2wq7_A           30 TLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDW----------MQVGANRW-----------RFLQ   88 (543)
T ss_dssp             EEEEEESSCCCSTTCHHHHHHHHHHHHSTTTEEEEEEEEECTTGGGC----------TTSCHHHH-----------HHHH
T ss_pred             eEEEEeCCCcCcchHHHHHHHHHhCccccCCCeEEEEEEECchhhcc----------cCCCHHHH-----------HHHH
Confidence            446666433  3344678888887654  567799999998763210          00000011           1234


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      +.+..+.+.++..|..+.  ++.|++.+.|.+.+++.+++.|+.... ..... .-.-......+....+++..+...
T Consensus        89 ~sL~~L~~~L~~~G~~L~--v~~g~~~~~l~~l~~~~~~~~v~~~~~-~~p~~-~~rd~~v~~~~~~~gi~~~~~~~~  162 (543)
T 2wq7_A           89 QTLEDLDNQLRKLNSRLF--VVRGKPAEVFPRIFKSWRVEMLTFETD-IEPYS-VTRDAAVQKLAKAEGVRVETHCSH  162 (543)
T ss_dssp             HHHHHHHHHHHHTTCCCE--EEESCHHHHHHHHHHHTTEEEEEEECC-CSHHH-HHHHHHHHHHHHHHTCEEEEECCS
T ss_pred             HHHHHHHHHHHHCCCeEE--EEeCCHHHHHHHHHHHcCCCEEEEecC-cCHHH-HHHHHHHHHHHHHcCCEEEEecCC
Confidence            566777777777888776  557999999999999999998888643 22221 111223445555567777766543

>3tqi_A GMP synthase [glutamine-hydrolyzing]; ligase; 2.84A {Coxiella burnetii}

Probab=89.98  E-value=0.86  Score=35.34  Aligned_cols=37  Identities=19%  Similarity=0.245  Sum_probs=28.4

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ++++++++|..+|-.++..+.+.   .+.+++.+|+....
T Consensus       231 ~kvlvalSGGvDSsvla~ll~~~---~G~~v~av~vd~g~  267 (527)
T 3tqi_A          231 EQVIVGLSGGVDSAVTATLVHKA---IGDQLVCVLVDTGL  267 (527)
T ss_dssp             SCEEEECTTTHHHHHHHHHHHHH---HGGGEEEEEECCSC
T ss_pred             CeEEEEEecCcCHHHHHHHHHHH---hCCeEEEEEeccCC
Confidence            68999999999998777665543   35789999986543

>1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Thermus thermophilus} SCOP: c.55.3.8

Probab=89.86  E-value=0.86  Score=26.84  Aligned_cols=55  Identities=18%  Similarity=0.077  Sum_probs=36.6

Q ss_pred             ChhhHHHHHHHhcCCCEEEEeecCC----ccccceeeccchhHHhcCCCccEEEEeCCCC
Q 031202          106 DPREKLCDAVEDLKLDTLVVGSRGL----GALKRVLLGSVSNHVVTNSSCPVTVVKGNPV  161 (164)
Q Consensus       106 ~~~~~I~~~a~~~~~dliv~g~~~~----~~~~~~~~gs~~~~v~~~~~~pVliv~~~~~  161 (164)
                      ...+.|.+++++++++.||+|-.-.    .+......-..++.+-.. +.||..+-.+..
T Consensus        38 ~~~~~l~~li~e~~v~~iVvGlP~~mdGt~~~~~~~~~~f~~~L~~~-~lpV~~~DERlT   96 (98)
T 1iv0_A           38 EDVEALLDFVRREGLGKLVVGLPLRTDLKESAQAGKVLPLVEALRAR-GVEVELWDERFT   96 (98)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEECCCCCCSSSCCCSSTTHHHHHHHHHT-TCEEEEECCSCC
T ss_pred             HHHHHHHHHHHHcCCCEEEEeeccCCCCCcCHHHHHHHHHHHHHhcC-CCCEEEECCCCC
Confidence            3468899999999999999994311    111111122346677667 899999876654

>3p9x_A Phosphoribosylglycinamide formyltransferase; structural genomics, PSI-biology, protein STRU initiative; 1.90A {Bacillus halodurans}

Probab=89.39  E-value=3.6  Score=27.82  Aligned_cols=85  Identities=9%  Similarity=-0.003  Sum_probs=52.7

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      |.+|.|-++++.....++-.+.. ....+++|.++-.  ....                                     
T Consensus         2 m~riavl~Sg~Gsnl~ali~~~~-~~~l~~eI~~Vis--n~~~-------------------------------------   41 (211)
T 3p9x_A            2 MKRVAIFASGSGTNAEAIIQSQK-AGQLPCEVALLIT--DKPG-------------------------------------   41 (211)
T ss_dssp             -CEEEEECCTTCHHHHHHHHHHH-TTCCSSEEEEEEE--SCSS-------------------------------------
T ss_pred             CCEEEEEEeCCchHHHHHHHHHH-cCCCCcEEEEEEE--CCCC-------------------------------------
Confidence            36899999998777666666554 2334566655444  3210                                     


Q ss_pred             HHHHHHHhhhcCceEEEEEee--CC---hhhHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVYW--GD---PREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~--g~---~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                       ....+.+.+.|+++...-..  .+   ..+++.+..++.++|++|+...+
T Consensus        42 -a~v~~~A~~~gIp~~~~~~~~~~~r~~~d~~~~~~l~~~~~Dliv~agy~   91 (211)
T 3p9x_A           42 -AKVVERVKVHEIPVCALDPKTYPSKEAYEIEVVQQLKEKQIDFVVLAGYM   91 (211)
T ss_dssp             -SHHHHHHHTTTCCEEECCGGGSSSHHHHHHHHHHHHHHTTCCEEEESSCC
T ss_pred             -cHHHHHHHHcCCCEEEeChhhcCchhhhHHHHHHHHHhcCCCEEEEeCch
Confidence             02445666778887642111  11   24688899999999999997653

>2dpl_A GMP synthetase, GMP synthase [glutamine-hydrolyzing] subunit B; pyrococcus horikoshii OT3, structural genomics, NPPSFA; 1.43A {Pyrococcus horikoshii} PDB: 2z0c_A 3a4i_A

Probab=89.04  E-value=2.9  Score=29.96  Aligned_cols=37  Identities=16%  Similarity=0.146  Sum_probs=28.4

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPN   44 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~   44 (164)
                      ++++|+++|..+|-.++..+.+.   .+.+++.+|+....
T Consensus        21 ~kvlvalSGGvDSsvla~ll~~~---~g~~v~av~vd~g~   57 (308)
T 2dpl_A           21 SKAIIALSGGVDSSTAAVLAHKA---IGDRLHAVFVNTGF   57 (308)
T ss_dssp             SCEEEECCSSHHHHHHHHHHHHH---HGGGEEEEEEECSC
T ss_pred             CCEEEEEeChHHHHHHHHHHHHh---hCCCEEEEEEcCCC
Confidence            58999999999998777766554   35688999987543

>2c5s_A THII, probable thiamine biosynthesis protein THII; RNA-binding protein, RNA binding protein, tRNA modification, 4-thiouridine synthase; HET: AMP; 2.5A {Bacillus anthracis} SCOP: c.26.2.6 d.308.1.1

Probab=88.39  E-value=4.3  Score=30.37  Aligned_cols=36  Identities=19%  Similarity=0.206  Sum_probs=28.4

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      -.+++|+++|..+|..++..+..    .|.++..+|+...
T Consensus       187 ~~kvlvalSGGvDS~vll~ll~~----~G~~v~av~v~~~  222 (413)
T 2c5s_A          187 GGKVMVLLSGGIDSPVAAYLTMK----RGVSVEAVHFHSP  222 (413)
T ss_dssp             TEEEEEECCSSSHHHHHHHHHHH----BTEEEEEEEEECT
T ss_pred             CCeEEEEeCCCChHHHHHHHHHH----cCCcEEEEEEeCC
Confidence            46899999999999877766554    4789999999753

>2der_A TRNA-specific 2-thiouridylase MNMA; protein-RNA complex, transferase/RNA complex; 3.10A {Escherichia coli} PDB: 2det_A 2deu_A*

Probab=87.98  E-value=4.3  Score=30.04  Aligned_cols=97  Identities=16%  Similarity=0.165  Sum_probs=59.6

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      -.+|+|+++|..+|-.++..+.    ..+-++..+++.......               ....-.           ..+.
T Consensus        17 ~~kVvVa~SGGvDSsv~a~lL~----~~G~~V~~v~~~~~~~~~---------------~~~~~~-----------s~~d   66 (380)
T 2der_A           17 AKKVIVGMSGGVDSSVSAWLLQ----QQGYQVEGLFMKNWEEDD---------------GEEYCT-----------AAAD   66 (380)
T ss_dssp             CCEEEEECCSCSTTHHHHHHHH----TTCCEEEEEEEECCCCCS---------------HHHHHH-----------HHHH
T ss_pred             CCEEEEEEEChHHHHHHHHHHH----HcCCeEEEEEEEcCcccc---------------ccCCCC-----------CHHH
Confidence            3589999999999876655443    347899999987532110               000000           1233


Q ss_pred             HHHHHHHhhhcCceEEEEEee-----------------C---C---------hhhHHHHHHHh-cCCCEEEEeecCC
Q 031202           84 LDILDTLSRTKGAKVVAKVYW-----------------G---D---------PREKLCDAVED-LKLDTLVVGSRGL  130 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~-----------------g---~---------~~~~I~~~a~~-~~~dliv~g~~~~  130 (164)
                      .+.+++.|+..|+++...-..                 |   +         -...+.+.+.+ .++|.|+.|++..
T Consensus        67 ~~~a~~va~~LGIp~~vvd~~~~f~~~v~~~~~~ey~~G~tpnpc~~Cnr~ik~~~l~~~A~~~~Gad~IatGH~a~  143 (380)
T 2der_A           67 LADAQAVCDKLGIELHTVNFAAEYWDNVFELFLAEYKAGRTPNPDILCNKEIKFKAFLEFAAEDLGADYIATGHYVR  143 (380)
T ss_dssp             HHHHHHHHHHHTCCEEEEECHHHHHHHTHHHHHHHHHTTCCCCHHHHHHHHTTTTHHHHHHHHTTCCSEEECCCSCE
T ss_pred             HHHHHHHHHHcCCcEEEEeCcHHHHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHHHHHHHHhhcCCCEEEEccccc
Confidence            556666777778776654221                 1   0         12456677888 9999999997543

>3da8_A Probable 5'-phosphoribosylglycinamide formyltransferase PURN; glycinamide ribonucleotide transformylase, structure; 1.30A {Mycobacterium tuberculosis} PDB: 3dcj_A*

Probab=87.42  E-value=5.1  Score=27.17  Aligned_cols=83  Identities=12%  Similarity=-0.077  Sum_probs=51.0

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      +.+|.|.++++.....++-.+..  ...+++|  +.|+..+. .                                    
T Consensus        12 ~~ri~vl~SG~gsnl~all~~~~--~~~~~eI--~~Vis~~~-a------------------------------------   50 (215)
T 3da8_A           12 PARLVVLASGTGSLLRSLLDAAV--GDYPARV--VAVGVDRE-C------------------------------------   50 (215)
T ss_dssp             SEEEEEEESSCCHHHHHHHHHSS--TTCSEEE--EEEEESSC-C------------------------------------
T ss_pred             CcEEEEEEeCChHHHHHHHHHHh--ccCCCeE--EEEEeCCc-h------------------------------------
Confidence            46899999998776555544432  2234455  44454431 0                                    


Q ss_pred             HHHHHHHhhhcCceEEEEEee--C---ChhhHHHHHHHhcCCCEEEEeecC
Q 031202           84 LDILDTLSRTKGAKVVAKVYW--G---DPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~--g---~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                        ...+.+.++|+++...-..  .   ...+++.+..++.++|++|+....
T Consensus        51 --~~~~~A~~~gIp~~~~~~~~~~~r~~~d~~~~~~l~~~~~Dlivlagy~   99 (215)
T 3da8_A           51 --RAAEIAAEASVPVFTVRLADHPSRDAWDVAITAATAAHEPDLVVSAGFM   99 (215)
T ss_dssp             --HHHHHHHHTTCCEEECCGGGSSSHHHHHHHHHHHHHTTCCSEEEEEECC
T ss_pred             --HHHHHHHHcCCCEEEeCcccccchhhhhHHHHHHHHhhCCCEEEEcCch
Confidence              1245666778887653111  1   124678899999999999997664

>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} SCOP: a.99.1.1 c.28.1.1

Probab=87.29  E-value=2.6  Score=32.28  Aligned_cols=130  Identities=15%  Similarity=0.030  Sum_probs=73.4

Q ss_pred             cEEEEEecCC--hhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            5 RTVGVGMDNS--PNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         5 ~~ILv~~d~s--~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      +.+|+=+..+  -.+-.+|..|++    .+.++..|++.++......     ..+.........           ....+
T Consensus         6 ~~~l~WfrrDLRl~DN~aL~~A~~----~~~~v~~vfi~dp~~~~~~-----~~~~~~~~~~r~-----------~Fl~~   65 (489)
T 1np7_A            6 PTVLVWFRNDLRLHDHEPLHRALK----SGLAITAVYCYDPRQFAQT-----HQGFAKTGPWRS-----------NFLQQ   65 (489)
T ss_dssp             CEEEEEESSCCCSTTCHHHHHHHH----TTSEEEEEEEECGGGGSBC-----TTSCBSSCHHHH-----------HHHHH
T ss_pred             CcEEEEeCCCCCcchHHHHHHHHh----cCCCEEEEEEECchhhccc-----ccccCCCCHHHH-----------HHHHH
Confidence            4556666433  333456776664    3457889999887532110     000000011111           12345


Q ss_pred             HHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .+..+.+.+++.|..+.  ++.|++.+.|.+.+++.+++.|+...... ..... .-....+.+...++++..+..
T Consensus        66 sL~~L~~~L~~~G~~L~--v~~g~~~~~l~~l~~~~~~~~V~~~~~~~-~~~~~-rd~~v~~~l~~~gi~~~~~~~  137 (489)
T 1np7_A           66 SVQNLAESLQKVGNKLL--VTTGLPEQVIPQIAKQINAKTIYYHREVT-QEELD-VERNLVKQLTILGIEAKGYWG  137 (489)
T ss_dssp             HHHHHHHHHHHTTCCEE--EEESCHHHHHHHHHHHTTEEEEEEECCCS-HHHHH-HHHHHHHHHHHHTCEEEEECC
T ss_pred             HHHHHHHHHHHCCCcEE--EEECCHHHHHHHHHHHcCCCEEEEecccC-HHHHH-HHHHHHHHHHhcCCeEEEecC
Confidence            67777777777888876  56799999999999999998888864322 22111 112233344445566666554

>1kor_A Argininosuccinate synthetase; ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: ANP ARG; 1.95A {Thermus thermophilus} SCOP: c.26.2.1 d.210.1.1 PDB: 1j1z_A* 1j21_A* 1kh1_A 1kh2_A* 1kh3_A* 1j20_A*

Probab=86.69  E-value=7.7  Score=28.95  Aligned_cols=36  Identities=8%  Similarity=0.200  Sum_probs=28.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      ++++|+++|..+|-.++.++.+.   ++.++..+|+...
T Consensus         1 ~kVvva~SGG~DSsvll~ll~~~---~g~~V~av~vd~g   36 (400)
T 1kor_A            1 MKIVLAYSGGLDTSIILKWLKET---YRAEVIAFTADIG   36 (400)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHHH---HTCEEEEEEEESS
T ss_pred             CcEEEEEeChHHHHHHHHHHHHh---hCCcEEEEEEeCC
Confidence            47999999999998888776543   3678999998765

>1vbk_A Hypothetical protein PH1313; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 1.90A {Pyrococcus horikoshii} SCOP: c.26.2.6 d.308.1.1

Probab=86.01  E-value=6.5  Score=28.14  Aligned_cols=33  Identities=12%  Similarity=0.042  Sum_probs=25.4

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEe
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQ   41 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~   41 (164)
                      ..++++.++| -+|..|+-    ++...|..++.+|+.
T Consensus       179 ~~kvlvllSG-vDS~vaa~----ll~~~G~~v~~v~~~  211 (307)
T 1vbk_A          179 EGRMIGILHD-ELSALAIF----LMMKRGVEVIPVYIG  211 (307)
T ss_dssp             TCEEEEECSS-HHHHHHHH----HHHHBTCEEEEEEES
T ss_pred             CCcEEEEEeC-CcHHHHHH----HHHhCCCeEEEEEEE
Confidence            3689999999 88865443    344468999999998

>2o8v_A Phosphoadenosine phosphosulfate reductase; disulfide crosslinked complex, oxidoreductase; 3.00A {Escherichia coli}

Probab=86.01  E-value=6.6  Score=27.09  Aligned_cols=35  Identities=9%  Similarity=-0.067  Sum_probs=26.9

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      .+|+|+++|..+|..++..+.++.    .++.++|+...
T Consensus        46 ~~v~va~SGG~DS~vLL~ll~~~~----~~v~vv~idtg   80 (252)
T 2o8v_A           46 GEYVLSSSFGIQAAVSLHLVNQIR----PDIPVILTDTG   80 (252)
T ss_dssp             SCEEEECCCSTTHHHHHHHHHHHS----TTCEEEECCCS
T ss_pred             CCEEEEeCCCHHHHHHHHHHHHhC----CCCeEEEecCC
Confidence            379999999999988888777664    35677777654

>1g63_A Epidermin modifying enzyme EPID; alpha, beta protein, rossmann like fold, oxidoreductase; HET: FMN; 2.50A {Staphylococcus epidermidis} SCOP: c.34.1.1 PDB: 1g5q_A*

Probab=85.87  E-value=1.1  Score=29.67  Aligned_cols=36  Identities=8%  Similarity=-0.075  Sum_probs=29.0

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHV   40 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v   40 (164)
                      +++|++++.|+..+.++.+....|.+ .+.+++++--
T Consensus         2 ~k~IllgvTGs~aa~k~~~l~~~L~~-~g~~V~vv~T   37 (181)
T 1g63_A            2 YGKLLICATASINVININHYIVELKQ-HFDEVNILFS   37 (181)
T ss_dssp             CCCEEEEECSCGGGGGHHHHHHHHTT-TSSCEEEEEC
T ss_pred             CCEEEEEEECHHHHHHHHHHHHHHHH-CCCEEEEEEc
Confidence            57999999999999998888777754 4777777653

>2pg3_A Queuosine biosynthesis protein QUEC; YP_049261.1, hypothetical protein, structural genomics, JOIN for structural genomics; 2.40A {Pectobacterium atrosepticum SCRI1043} SCOP: c.26.2.1

Probab=85.56  E-value=6.5  Score=26.59  Aligned_cols=36  Identities=17%  Similarity=0.061  Sum_probs=28.5

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      +++++|.++|..+|-.++.++.+.    +.+++.+|+...
T Consensus         2 ~~kvvv~lSGG~DS~~~l~ll~~~----~~~v~av~~~~g   37 (232)
T 2pg3_A            2 MKRAVVVFSGGQDSTTCLIQALQD----YDDVHCITFDYG   37 (232)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHH----CSEEEEEEEESS
T ss_pred             CCCEEEEecCcHHHHHHHHHHHHc----CCCEEEEEEECC
Confidence            468999999999998877776653    358888888754

>3nbm_A PTS system, lactose-specific IIBC components; PTS_IIB_LACTOSE, phosphoenolpyruvate:carbohydrate system, P- phosphorylation; HET: MSE; 1.30A {Streptococcus pneumoniae}

Probab=84.32  E-value=1.7  Score=26.02  Aligned_cols=65  Identities=8%  Similarity=0.161  Sum_probs=40.3

Q ss_pred             hHHHHHHHHhhhcCceEEEEEe-eCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVY-WGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      -+...+++.+...|++++..-. .+...+    ...  ++|++++|..-+..+.      .....+...++||.+++.
T Consensus        21 llv~km~~~a~~~gi~v~i~a~~~~~~~~----~~~--~~DvvLLgPQV~y~~~------~ik~~~~~~~ipV~vI~~   86 (108)
T 3nbm_A           21 QLANAINEGANLTEVRVIANSGAYGAHYD----IMG--VYDLIILAPQVRSYYR------EMKVDAERLGIQIVATRG   86 (108)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEEETTSCTT----TGG--GCSEEEECGGGGGGHH------HHHHHHTTTTCEEEECCH
T ss_pred             HHHHHHHHHHHHCCCceEEEEcchHHHHh----hcc--CCCEEEEChHHHHHHH------HHHHHhhhcCCcEEEeCH
Confidence            3556667777778888876432 233222    223  4699999976443322      244566667899998874

>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}

Probab=84.25  E-value=4.4  Score=23.51  Aligned_cols=38  Identities=16%  Similarity=0.176  Sum_probs=27.4

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhc
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDL  118 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~  118 (164)
                      +..++.+.+..++.|.++.+..--++....+.+.+++.
T Consensus        87 qnrleefsrevrrrgfevrtvtspddfkkslerlirev  124 (134)
T 2l69_A           87 QNRLEEFSREVRRRGFEVRTVTSPDDFKKSLERLIREV  124 (134)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhcCceEEEecChHHHHHHHHHHHHHh
Confidence            56778888888889999887433346667777777664

>4ds3_A Phosphoribosylglycinamide formyltransferase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 1.85A {Brucella melitensis BV}

Probab=84.20  E-value=7.5  Score=26.19  Aligned_cols=41  Identities=12%  Similarity=0.089  Sum_probs=29.0

Q ss_pred             HHhhhcCceEEEEEee--CC---hhhHHHHHHHhcCCCEEEEeecC
Q 031202           89 TLSRTKGAKVVAKVYW--GD---PREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        89 ~~~~~~~~~~~~~v~~--g~---~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      +.++++|+++...-..  .+   ..+++.+..++.++|++|+....
T Consensus        51 ~~A~~~gIp~~~~~~~~~~~r~~~d~~~~~~l~~~~~Dliv~agy~   96 (209)
T 4ds3_A           51 AKAEAAGIATQVFKRKDFASKEAHEDAILAALDVLKPDIICLAGYM   96 (209)
T ss_dssp             HHHHHTTCCEEECCGGGSSSHHHHHHHHHHHHHHHCCSEEEESSCC
T ss_pred             HHHHHcCCCEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEeccc
Confidence            4667779887753211  12   24789999999999999997653

>2ejb_A Probable aromatic acid decarboxylase; phenylacrylic acid decarboxylase, X-RAY diffraction, structural genomics, NPPSFA; 2.15A {Aquifex aeolicus}

Probab=84.08  E-value=2.3  Score=28.20  Aligned_cols=34  Identities=3%  Similarity=-0.088  Sum_probs=27.6

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      ++|++++.|+..+.++.+..-.|.+. +.+++++-
T Consensus         2 k~IllgvTGs~aa~k~~~l~~~L~~~-g~~V~vv~   35 (189)
T 2ejb_A            2 QKIALCITGASGVIYGIKLLQVLEEL-DFSVDLVI   35 (189)
T ss_dssp             CEEEEEECSSTTHHHHHHHHHHHHHT-TCEEEEEE
T ss_pred             CEEEEEEECHHHHHHHHHHHHHHHHC-CCEEEEEE
Confidence            79999999999888888887777554 77777664

>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana}

Probab=83.97  E-value=1.2  Score=34.69  Aligned_cols=110  Identities=18%  Similarity=0.261  Sum_probs=62.6

Q ss_pred             CCCCcEEEEEec--CChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCC
Q 031202            1 MSKARTVGVGMD--NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLT   78 (164)
Q Consensus         1 m~~~~~ILv~~d--~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (164)
                      |++.+.+|+=+.  .--.+-.||..|++    .+.+|..|+|.++......... ...|.........           .
T Consensus         1 ~~~~~~~lvWFRrDLRl~DN~AL~~A~~----~~~~vlpvfi~dp~~~~~~~~~-~~~g~~~~g~~r~-----------~   64 (537)
T 3fy4_A            1 MATGSGSLIWFRKGLRVHDNPALEYASK----GSEFMYPVFVIDPHYMESDPSA-FSPGSSRAGVNRI-----------R   64 (537)
T ss_dssp             ---CCEEEEEESSCCCSTTCHHHHHHHT----TCSCEEEEEEECHHHHSCCTTS-SSSBCSSCBHHHH-----------H
T ss_pred             CCCCCcEEEEeCCCcccchhHHHHHHHh----cCCCEEEEEEeChhhhcccccc-cccccccCCHHHH-----------H
Confidence            555555566553  32333456666654    4568999999976422100000 0000000111111           1


Q ss_pred             CChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           79 SNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      ...+.+..+.+.++..|....  ++.|++.+.|.+.+++.+++.|+....
T Consensus        65 Fl~~sL~~L~~~L~~~G~~L~--v~~G~~~~vl~~L~~~~~~~~V~~n~~  112 (537)
T 3fy4_A           65 FLLESLKDLDSSLKKLGSRLL--VFKGEPGEVLVRCLQEWKVKRLCFEYD  112 (537)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCE--EEESCHHHHHHHHHTTSCEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHcCCceE--EEECCHHHHHHHHHHHcCCCEEEEecc
Confidence            234567777777777787766  567999999999999999999888643

>1ccw_A Protein (glutamate mutase); coenzyme B12, radical reaction, TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A {Clostridium cochlearium} SCOP: c.23.6.1 PDB: 1cb7_A* 1b1a_A 1i9c_A* 1be1_A 1fmf_A 1id8_A*

Probab=83.68  E-value=5  Score=24.90  Aligned_cols=71  Identities=20%  Similarity=0.072  Sum_probs=46.6

Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCC--CccEEEEe
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNS--SCPVTVVK  157 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~--~~pVliv~  157 (164)
                      ...+...++..|.++.. ....-+.+++++.+++.++|+|++.........  .+..+.+.+-...  +++|++=-
T Consensus        20 ~~~v~~~l~~~G~~Vi~-lG~~~p~e~~v~~a~~~~~d~v~lS~~~~~~~~--~~~~~i~~l~~~g~~~i~v~vGG   92 (137)
T 1ccw_A           20 NKILDHAFTNAGFNVVN-IGVLSPQELFIKAAIETKADAILVSSLYGQGEI--DCKGLRQKCDEAGLEGILLYVGG   92 (137)
T ss_dssp             HHHHHHHHHHTTCEEEE-EEEEECHHHHHHHHHHHTCSEEEEEECSSTHHH--HHTTHHHHHHHTTCTTCEEEEEE
T ss_pred             HHHHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHhcCCCEEEEEecCcCcHH--HHHHHHHHHHhcCCCCCEEEEEC
Confidence            34566677788988875 223468999999999999999999876433222  2344555554432  36676543

>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB: 1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A*

Probab=83.32  E-value=7  Score=29.87  Aligned_cols=114  Identities=11%  Similarity=0.085  Sum_probs=69.5

Q ss_pred             hHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhhhcCc
Q 031202           17 SKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGA   96 (164)
Q Consensus        17 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (164)
                      +-.+|..|++.+    .+|..+++.++.....          ........           ....+.+..+.+.++..|.
T Consensus        17 Dn~aL~~A~~~~----~~v~~vfi~dp~~~~~----------~~~~~~r~-----------~fl~~sL~~L~~~L~~~G~   71 (484)
T 1owl_A           17 DNIGLAAARAQS----AQLIGLFCLDPQILQS----------ADMAPARV-----------AYLQGCLQELQQRYQQAGS   71 (484)
T ss_dssp             SCHHHHHHHHHC----SCEEEEEEECHHHHTC----------TTCCHHHH-----------HHHHHHHHHHHHHHHHHTS
T ss_pred             hhHHHHHHHhcC----CCEEEEEEEcchhhcC----------CCCCHHHH-----------HHHHHHHHHHHHHHHHCCC
Confidence            345677776632    3788999987652110          00000001           1234566677777777788


Q ss_pred             eEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           97 KVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        97 ~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      .+.  ++.|++.+.|.+.+++.+++.|+....-.. ... -.-....+.+...++++..+...
T Consensus        72 ~L~--v~~g~~~~~l~~l~~~~~~~~v~~~~~~~p-~~~-~rd~~v~~~l~~~gi~~~~~~~~  130 (484)
T 1owl_A           72 RLL--LLQGDPQHLIPQLAQQLQAEAVYWNQDIEP-YGR-DRDGQVAAALKTAGIRAVQLWDQ  130 (484)
T ss_dssp             CEE--EEESCHHHHHHHHHHHTTCSEEEEECCCSH-HHH-HHHHHHHHHHHHTTCEEEEECCS
T ss_pred             eEE--EEeCCHHHHHHHHHHHcCCCEEEEeccCCh-hHH-HHHHHHHHHHHHcCcEEEEecCC
Confidence            876  557999999999999999999998644322 211 11233444555667888777643

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=82.38  E-value=3.9  Score=26.25  Aligned_cols=71  Identities=17%  Similarity=0.143  Sum_probs=44.5

Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCC--CccEEEEe
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNS--SCPVTVVK  157 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~--~~pVliv~  157 (164)
                      ...+...++..|.++.. .-...+.+.+++.+++.++|+|.+.........  .+..+.+.+-...  +++|++=-
T Consensus        35 ~~~va~~l~~~G~eVi~-lG~~~p~e~lv~aa~~~~~diV~lS~~~~~~~~--~~~~~i~~L~~~g~~~i~v~vGG  107 (161)
T 2yxb_A           35 AKVVARALRDAGFEVVY-TGLRQTPEQVAMAAVQEDVDVIGVSILNGAHLH--LMKRLMAKLRELGADDIPVVLGG  107 (161)
T ss_dssp             HHHHHHHHHHTTCEEEC-CCSBCCHHHHHHHHHHTTCSEEEEEESSSCHHH--HHHHHHHHHHHTTCTTSCEEEEE
T ss_pred             HHHHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHhcCCCEEEEEeechhhHH--HHHHHHHHHHhcCCCCCEEEEeC
Confidence            34555667777887763 222368899999999999999999876433222  1233444443332  37777643

>3tqr_A Phosphoribosylglycinamide formyltransferase; purines, pyrimidines, nucleosides, nucleotides; HET: NHE; 1.97A {Coxiella burnetii} SCOP: c.65.1.0

Probab=80.98  E-value=11  Score=25.60  Aligned_cols=83  Identities=11%  Similarity=-0.072  Sum_probs=51.1

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+|.|.++++.....++-.+..- . .+.+  ++.|+......                                 ..  
T Consensus         6 ~riavl~SG~Gsnl~all~~~~~-~-~~~e--I~~Vis~~~~a---------------------------------~~--   46 (215)
T 3tqr_A            6 LPIVVLISGNGTNLQAIIGAIQK-G-LAIE--IRAVISNRADA---------------------------------YG--   46 (215)
T ss_dssp             EEEEEEESSCCHHHHHHHHHHHT-T-CSEE--EEEEEESCTTC---------------------------------HH--
T ss_pred             cEEEEEEeCCcHHHHHHHHHHHc-C-CCCE--EEEEEeCCcch---------------------------------HH--
Confidence            48999999987776666555442 2 3444  44455443110                                 00  


Q ss_pred             HHHHHHhhhcCceEEEEEee--C---ChhhHHHHHHHhcCCCEEEEeecC
Q 031202           85 DILDTLSRTKGAKVVAKVYW--G---DPREKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~--g---~~~~~I~~~a~~~~~dliv~g~~~  129 (164)
                         .+.+++.|+++...-..  .   ...+++.+..++.++|++|+....
T Consensus        47 ---~~~A~~~gIp~~~~~~~~~~~r~~~d~~~~~~l~~~~~Dliv~agy~   93 (215)
T 3tqr_A           47 ---LKRAQQADIPTHIIPHEEFPSRTDFESTLQKTIDHYDPKLIVLAGFM   93 (215)
T ss_dssp             ---HHHHHHTTCCEEECCGGGSSSHHHHHHHHHHHHHTTCCSEEEESSCC
T ss_pred             ---HHHHHHcCCCEEEeCccccCchhHhHHHHHHHHHhcCCCEEEEccch
Confidence               24566778887642111  1   124689999999999999997653

>2ywr_A Phosphoribosylglycinamide formyltransferase; rossmann fold, structural genomics, NPPSFA; 1.77A {Aquifex aeolicus}

Probab=80.88  E-value=11  Score=25.52  Aligned_cols=62  Identities=6%  Similarity=-0.033  Sum_probs=38.0

Q ss_pred             HHHhhhcCceEEEEEeeC--C---hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           88 DTLSRTKGAKVVAKVYWG--D---PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        88 ~~~~~~~~~~~~~~v~~g--~---~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .+++.+.|+++...-...  +   ..+++.+..++.++|++|+...++-         ....++...+..++=+++
T Consensus        44 ~~~A~~~gIp~~~~~~~~~~~r~~~~~~~~~~l~~~~~Dliv~a~y~~i---------l~~~~l~~~~~~~iNiHp  110 (216)
T 2ywr_A           44 IERCKKHNVECKVIQRKEFPSKKEFEERMALELKKKGVELVVLAGFMRI---------LSHNFLKYFPNKVINIHP  110 (216)
T ss_dssp             HHHHHHHTCCEEECCGGGSSSHHHHHHHHHHHHHHTTCCEEEESSCCSC---------CCHHHHTTSTTCEEEEES
T ss_pred             HHHHHHcCCCEEEeCcccccchhhhhHHHHHHHHhcCCCEEEEeCchhh---------CCHHHHhhccCCeEEEcC
Confidence            456677798876421111  1   2467889999999999999765321         234455555555555543

>3r7f_A Aspartate carbamoyltransferase; aspartate transcarbamoylase, carbamoyl phosphate, transferas catalytic cycle; 2.10A {Bacillus subtilis} PDB: 3r7d_A 3r7l_A* 2at2_A

Probab=80.71  E-value=4.5  Score=29.00  Aligned_cols=59  Identities=15%  Similarity=0.233  Sum_probs=37.8

Q ss_pred             HHHHhhhcCceEEEE------EeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           87 LDTLSRTKGAKVVAK------VYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        87 ~~~~~~~~~~~~~~~------v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                      |+..+.+.|..+-..      +..|+......+.....++|.||+.+...+         ..+.+++++.+||+
T Consensus        54 FE~A~~~LGg~~i~l~~~~ss~~kgEsl~DTarvLs~~~~D~iviR~~~~~---------~~~~la~~~~vPVI  118 (304)
T 3r7f_A           54 FEVAEKKLGMNVLNLDGTSTSVQKGETLYDTIRTLESIGVDVCVIRHSEDE---------YYEELVSQVNIPIL  118 (304)
T ss_dssp             HHHHHHHTTCEEEEEETTSTTSCSSSCHHHHHHHHHHHTCCEEEEECSSTT---------CHHHHHHHCSSCEE
T ss_pred             HHHHHHHCCCeEEEECcccccCCCCCCHHHHHHHHHHhcCCEEEEecCChh---------HHHHHHHhCCCCEE
Confidence            333444455554432      223566667777777888899999766432         35667788999976

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	164
d2gm3a1	171	c.26.2.4 (A:5-175) Putative ethylene-responsive pr	9e-28
d1mjha_	160	c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archa	3e-22
d1tq8a_	147	c.26.2.4 (A:) Hypothetical protein Rv1636 {Mycobac	3e-22
d2z3va1	135	c.26.2.4 (A:2-136) Hypothetical protein TTHA0895 {	4e-21
d1jmva_	140	c.26.2.4 (A:) Universal stress protein A, UspA {Ha	4e-16
d1q77a_	138	c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex	4e-12

>d2gm3a1 c.26.2.4 (A:5-175) Putative ethylene-responsive protein AT3g01520/F4P13_7 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 171

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Putative ethylene-responsive protein AT3g01520/F4P13 7
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 99.6 bits (247), Expect = 9e-28
 Identities = 48/168 (28%), Positives = 78/168 (46%), Gaps = 20/168 (11%)

Query: 5   RTVGVGMDNS---------PNSKAALRWAADNLIDSGD---LIILIHVQPPNADHTRKQL 52
             V V ++ S          + K A  W  + ++ S      I+L+HVQ  + D      
Sbjct: 2   TKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDG----- 56

Query: 53  FEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLC 112
           F+D  S     E+FR++   +Q        +L+         G    A +  GDP++ +C
Sbjct: 57  FDDVDSIYASPEDFRDM---RQSNKAKGLHLLEFFVNKCHEIGVGCEAWIKTGDPKDVIC 113

Query: 113 DAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP 160
             V+ ++ D LVVGSRGLG  ++V +G+VS   V ++ CPV  +K N 
Sbjct: 114 QEVKRVRPDFLVVGSRGLGRFQKVFVGTVSAFCVKHAECPVMTIKRNA 161

>d1mjha_ c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 160

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: "Hypothetical" protein MJ0577
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 85.0 bits (209), Expect = 3e-22
 Identities = 38/153 (24%), Positives = 62/153 (40%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + +    D S  ++ AL+          + +IL+HV        R       G   +   
Sbjct: 4   KKILYPTDFSETAEIALKHVKAFKTLKAEEVILLHVIDEREIKKRDIFSLLLGVAGLNKS 63

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
                N  K          ++ +       G KV   +  G P E++    ED  +D ++
Sbjct: 64  VEEFENELKNKLTEEAKNKMENIKKELEDVGFKVKDIIVVGIPHEEIVKIAEDEGVDIII 123

Query: 125 VGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           +GS G   LK +LLGSV+ +V+  S+ PV VVK
Sbjct: 124 MGSHGKTNLKEILLGSVTENVIKKSNKPVLVVK 156

>d1tq8a_ c.26.2.4 (A:) Hypothetical protein Rv1636 {Mycobacterium tuberculosis [TaxId: 1773]} Length = 147

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Rv1636
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 84.6 bits (208), Expect = 3e-22
 Identities = 40/157 (25%), Positives = 60/157 (38%), Gaps = 13/157 (8%)

Query: 1   MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPL 60
           +S  +TV VG D S +S  A+  AA        LII     P + D     + +D    +
Sbjct: 2   LSAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASAYLPQHEDARAADILKDESYKV 61

Query: 61  VPLEEFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKL 120
                  EI             + D  +         V  +   G P + L +  ++ K 
Sbjct: 62  TGTAPIYEI-------------LHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKA 108

Query: 121 DTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           D LVVG+ GL  +   LLGSV  +V   +   V +V 
Sbjct: 109 DLLVVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVH 145

>d2z3va1 c.26.2.4 (A:2-136) Hypothetical protein TTHA0895 {Thermus thermophilus [TaxId: 274]} Length = 135

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein TTHA0895
species: Thermus thermophilus [TaxId: 274]

 Score = 81.5 bits (200), Expect = 4e-21
 Identities = 39/153 (25%), Positives = 62/153 (40%), Gaps = 20/153 (13%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           +T+ +  D S +++ A   A       G  +I++H   P  D+  +  FE+     +   
Sbjct: 2   KTILLAYDGSEHARRAAEVAKAEAEAHGARLIVVHAYEPVPDYLGEPFFEEALRRRLE-- 59

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLKLDTL 123
                                +L+      G     A +  G P E +  A    K D +
Sbjct: 60  -----------------RAEGVLEEARALTGVPKEDALLLEGVPAEAILQAARAEKADLI 102

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV 156
           V+G+RGLGAL  + LGS S  VV  + CPV +V
Sbjct: 103 VMGTRGLGALGSLFLGSQSQRVVAEAPCPVLLV 135

>d1jmva_ c.26.2.4 (A:) Universal stress protein A, UspA {Haemophilus influenzae [TaxId: 727]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Universal stress protein A, UspA
species: Haemophilus influenzae [TaxId: 727]

 Score = 68.9 bits (167), Expect = 4e-16
 Identities = 29/154 (18%), Positives = 48/154 (31%), Gaps = 20/154 (12%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + + V +D S  S   L+ A          + +IHV    +D     +  +  S    + 
Sbjct: 3   KHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRIS 62

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAK-VYWGDPREKLCDAVEDLKLDTL 123
                                 L  L+ +    +  K    GD  + L DA+E   +D L
Sbjct: 63  TE----------------TQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLL 106

Query: 124 VVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
           V G           L S +  V+      + VV 
Sbjct: 107 VTGHHQDFWS---KLMSSTRQVMNTIKIDMLVVP 137

>d1q77a_ c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex aeolicus [TaxId: 63363]} Length = 138

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Aq 178
species: Aquifex aeolicus [TaxId: 63363]

 Score = 58.2 bits (139), Expect = 4e-12
 Identities = 20/153 (13%), Positives = 45/153 (29%), Gaps = 19/153 (12%)

Query: 5   RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLE 64
           + + V  D   + + A+ +A +     G  + ++ V     +  R  +      P    E
Sbjct: 5   KVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLERANVTFGLPFPPEIKE 64

Query: 65  EFREINFSKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLV 124
           E ++    +   +                       +   G   E++   VE    + +V
Sbjct: 65  ESKKRIERRLREVWEKL----------TGSTEIPGVEYRIGPLSEEVKKFVEGKGYELVV 114

Query: 125 VGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK 157
                   L +V+ G          +    +VK
Sbjct: 115 WACYPSAYLCKVIDG---------LNLASLIVK 138

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	164
d1mjha_	160	"Hypothetical" protein MJ0577 {Archaeon Methanococ	100.0
d1tq8a_	147	Hypothetical protein Rv1636 {Mycobacterium tubercu	99.96
d2z3va1	135	Hypothetical protein TTHA0895 {Thermus thermophilu	99.95
d2gm3a1	171	Putative ethylene-responsive protein AT3g01520/F4P	99.95
d1jmva_	140	Universal stress protein A, UspA {Haemophilus infl	99.94
d1q77a_	138	Hypothetical protein Aq_178 {Aquifex aeolicus [Tax	99.9
d1wy5a1	216	TilS-like protein Aq_1887 {Aquifex aeolicus [TaxId	97.12
d3clsc1	262	Small, beta subunit of electron transfer flavoprot	96.64
d1efpb_	246	Small, beta subunit of electron transfer flavoprot	96.49
d1ni5a1	227	tRNA-Ile-lysidine synthetase, TilS, N-terminal dom	96.19
d1np7a2	204	Cryptochrome {Synechocystis sp., pcc 6803 [TaxId:	95.43
d1efvb_	252	Small, beta subunit of electron transfer flavoprot	94.37
d1u11a_	159	N5-CAIR mutase (phosphoribosylaminoimidazole carbo	94.36
d1xmpa_	155	N5-CAIR mutase (phosphoribosylaminoimidazole carbo	94.13
d1o4va_	169	N5-CAIR mutase (phosphoribosylaminoimidazole carbo	93.8
d1qcza_	163	N5-CAIR mutase (phosphoribosylaminoimidazole carbo	93.44
d1p3y1_	183	MrsD {Bacillus sp. hil-y85/54728 [TaxId: 69002]}	93.21
d2j07a2	170	DNA photolyase {Thermus thermophilus [TaxId: 274]}	91.82
d1owla2	202	DNA photolyase {Synechococcus elongatus [TaxId: 32	91.62
d1vbka1	132	Hypothetical protein PH1313, C-terminal domain {Ar	91.61
d2c5sa1	218	Thiamine biosynthesis protein ThiI, C-terminal dom	91.49
d1ls1a2	207	GTPase domain of the signal sequence recognition p	91.37
d1g5qa_	174	Epidermin modifying enzyme (peptidyl-cysteine deca	91.3
d3clsd1	192	Large, alpha subunit of electron transfer flavopro	90.46
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	88.92
d2qy9a2	211	GTPase domain of the signal recognition particle r	88.62
d2pjua1	186	Propionate catabolism operon regulatory protein Pr	88.11
d1okkd2	207	GTPase domain of the signal recognition particle r	86.13
d1xkya1	292	Dihydrodipicolinate synthase {Bacillus anthracis [	85.74
d1vmaa2	213	GTPase domain of the signal recognition particle r	84.88
d2d13a1	226	Hypothetical protein PH1257 {Archaeon Pyrococcus h	84.62
d2at2a1	144	Aspartate carbamoyltransferase catalytic subunit {	84.61
d1ycga1	149	Nitric oxide reductase C-terminal domain {Moorella	84.05
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	83.58
d1qzua_	181	4'-phosphopantothenoylcysteine decarboxylase (PPC	83.51
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	83.37
d1gsoa2	105	Glycinamide ribonucleotide synthetase (GAR-syn), N	83.26
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	82.7
d1zuna1	211	Sulfate adenylyltransferase subunit 2, CysD {Pseud	82.56
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	81.13
d1nhpa2	123	NADH peroxidase {Enterococcus faecalis [TaxId: 135	81.02
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	80.9
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	80.57
d2bona1	295	Lipid kinase YegS {Escherichia coli [TaxId: 562]}	80.37

>d1mjha_ c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: "Hypothetical" protein MJ0577
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=100.00  E-value=5.6e-34  Score=187.62  Aligned_cols=157  Identities=25%  Similarity=0.287  Sum_probs=121.6

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCC--ChhhHHHhhhhhhhcCCC
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLV--PLEEFREINFSKQYGLTS   79 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~   79 (164)
                      +|||+||||+|+|+.++.++++|..+|+..+++|+++||.++.............+....  ....+..  ...+...+.
T Consensus         1 ~m~~~ILvavD~s~~s~~al~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~   78 (160)
T d1mjha_           1 VMYKKILYPTDFSETAEIALKHVKAFKTLKAEEVILLHVIDEREIKKRDIFSLLLGVAGLNKSVEEFEN--ELKNKLTEE   78 (160)
T ss_dssp             CCCCEEEEECCSCHHHHHHHHHHHHTCCSSCCEEEEEEEEEGGGTC-----------------CHHHHH--HHHHHHHHH
T ss_pred             CCcCeEEEEECCCHHHHHHHHHHHHHHHhcCCEEEEEEecccccccccccccccccccccchhHHHHHH--HHHHHHHHH
Confidence            469999999999999999999999999999999999999877654332211111211111  1111111  222333344


Q ss_pred             ChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           80 NPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      .++.++.+.+.+...|+++++.+..|++.++|++++++.++|+||||+++++.+.++++||++++|+++++|||||||++
T Consensus        79 ~~~~l~~~~~~~~~~gv~~~~~~~~G~~~~~I~~~a~~~~~dliV~G~~~~~~~~~~~~GS~a~~vl~~s~~pVlvV~~~  158 (160)
T d1mjha_          79 AKNKMENIKKELEDVGFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMGSHGKTNLKEILLGSVTENVIKKSNKPVLVVKRK  158 (160)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTTCSEEEEESCCSSCCTTCSSCHHHHHHHHHCCSCEEEECCC
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEEeccHHHHHhhhhhccccceEEeccCCCCcccccccCcHHHHHHhcCCCCEEEEcCC
Confidence            56677777788888899999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             C
Q 031202          160 P  160 (164)
Q Consensus       160 ~  160 (164)
                      .
T Consensus       159 ~  159 (160)
T d1mjha_         159 N  159 (160)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d1tq8a_ c.26.2.4 (A:) Hypothetical protein Rv1636 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Rv1636
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.96  E-value=2.4e-29  Score=162.97  Aligned_cols=145  Identities=30%  Similarity=0.330  Sum_probs=111.5

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCC
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSN   80 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
                      |+.||+||||+|+|+.+..++++|+.+|+..+..++++++.+.......              ..............+..
T Consensus         2 M~~yk~ILv~vD~s~~s~~al~~A~~la~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~   67 (147)
T d1tq8a_           2 LSAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASAYLPQHEDARA--------------ADILKDESYKVTGTAPI   67 (147)
T ss_dssp             CCCCCEEEEECCSSHHHHHHHHHHHHHHTTTSEEEEEEECCC----------------------------------CCTH
T ss_pred             CcCCCEEEEEECCCHHHHHHHHHHHHHHhcCCCEEEEEEEecccccccc--------------cccchhhhHHHHHHHHH
Confidence            8889999999999999999999999999877766666555544332110              00011112334444566


Q ss_pred             hhHHHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ++.++.+.+.+.+.+.. +...+..|++.++|++++++.++|+||+|+++++++.++++||++++|+++++||||||++.
T Consensus        68 ~~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~i~~~a~~~~~dlIv~g~~~~~~~~~~l~Gs~~~~ll~~~~~pVlvV~~~  147 (147)
T d1tq8a_          68 YEILHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKADLLVVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVHTT  147 (147)
T ss_dssp             HHHHHHHHHHHHTTTCCEEEEEEECSSHHHHHHHHHHHTTCSEEEEECCCCCSHHHHHTBBHHHHHHHHTTCEEEEECCC
T ss_pred             HHHHHHHHHHHHHcCCCcEEEEEEecChHHHHHHhhhccceeEEEecCCCCCcccccccccHHHHHHHhCCCCEEEEecC
Confidence            77888888888888775 78889999999999999999999999999999999899999999999999999999999863

>d2z3va1 c.26.2.4 (A:2-136) Hypothetical protein TTHA0895 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein TTHA0895
species: Thermus thermophilus [TaxId: 274]

Probab=99.95  E-value=6.7e-29  Score=158.78  Aligned_cols=134  Identities=29%  Similarity=0.392  Sum_probs=105.0

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      |++||||+|+|+.++.++++|+++|+..+++|+++||.++.....           ..   .... +..+    +..+++
T Consensus         1 yk~Ilv~~D~s~~s~~a~~~a~~~a~~~~~~l~ll~V~~~~~~~~-----------~~---~~~~-~~~~----~~~~~~   61 (135)
T d2z3va1           1 FKTILLAYDGSEHARRAAEVAKAEAEAHGARLIVVHAYEPVPDYL-----------GE---PFFE-EALR----RRLERA   61 (135)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHHHHHHTCEEEEEEEECCCCTTC-----------CT---THHH-HHHH----HHHHHH
T ss_pred             CCEEEEEECCCHHHHHHHHHHHHHHHHcCCEEEEEEEecCCcccc-----------cc---chhH-HHHH----HHHHHH
Confidence            689999999999999999999999999999999999998653221           01   1111 0111    112344


Q ss_pred             HHHHHHHhhhcCce-EEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202           84 LDILDTLSRTKGAK-VVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus        84 ~~~~~~~~~~~~~~-~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      .+.+.+.....+.. ....+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++|||++|
T Consensus        62 ~~~l~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~~~~~~~~~~Gs~~~~ll~~~~~pVlvV  135 (135)
T d2z3va1          62 EGVLEEARALTGVPKEDALLLEGVPAEAILQAARAEKADLIVMGTRGLGALGSLFLGSQSQRVVAEAPCPVLLV  135 (135)
T ss_dssp             HHHHHHHHHHHCCCGGGEEEEESCHHHHHHHHHHHTTCSEEEEESSCSSSCBCSSCBHHHHHHHHHCSSCEEEE
T ss_pred             HHHHHHHHHhcCCCeEEEEEEcCChHHHHHHHhhhhheeeEEeccCCCCcccccccCcHHHHHHHhCCCCEEeC
Confidence            44555555444543 34446789999999999999999999999999999999999999999999999999997

>d2gm3a1 c.26.2.4 (A:5-175) Putative ethylene-responsive protein AT3g01520/F4P13_7 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Putative ethylene-responsive protein AT3g01520/F4P13 7
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.95  E-value=8e-28  Score=159.60  Aligned_cols=149  Identities=32%  Similarity=0.559  Sum_probs=105.8

Q ss_pred             CcEEEEEecCCh---------hhHHHHHHHHHHhccCCC---eEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhh
Q 031202            4 ARTVGVGMDNSP---------NSKAALRWAADNLIDSGD---LIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINF   71 (164)
Q Consensus         4 ~~~ILv~~d~s~---------~s~~al~~a~~la~~~~~---~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (164)
                      +++|||++|+|+         .|+.|++||+.++.+.++   .|+++|+........     ...+........+..   
T Consensus         1 p~ki~vavd~s~~~~~~~~~~~S~~Al~wal~~~~~~~~~~~~L~~vhv~~~~~~~~-----~~~~~~~~~~~~~~~---   72 (171)
T d2gm3a1           1 PTKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDGF-----DDVDSIYASPEDFRD---   72 (171)
T ss_dssp             CEEEEEECCBCSSSCTTCBCHHHHHHHHHHHHHTTTTCTTSEEEEEEEEEC---------------CCCCSHHHHHH---
T ss_pred             CCEEEEEEcCCcccCCCCCCHHHHHHHHHHHHHHHHCCCCCcEEEEEEecccccccc-----ccccccccCHHHHHH---
Confidence            479999999986         799999999999887766   699999987654321     111111112122211   


Q ss_pred             hhhhcCCCChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCc
Q 031202           72 SKQYGLTSNPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSC  151 (164)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~  151 (164)
                      ..+...+..++.++.+...+...++.++..+..|++.++|++++++.++|+||||+++++.+.++++||++++|+++++|
T Consensus        73 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~dlIV~G~~g~~~~~~~~lGSv~~~vi~~~~c  152 (171)
T d2gm3a1          73 MRQSNKAKGLHLLEFFVNKCHEIGVGCEAWIKTGDPKDVICQEVKRVRPDFLVVGSRGLGRFQKVFVGTVSAFCVKHAEC  152 (171)
T ss_dssp             HTTSHHHHHHHHHHHHHHHHHHHTCEEEEEEEESCHHHHHHHHHHHHCCSEEEEEECCCC--------CHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeCChHHHHHHHHhhcCCcEEEeccCCccccccCccCcHHHHHHhCCCC
Confidence            12222233456777788888888999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEeCCC
Q 031202          152 PVTVVKGNP  160 (164)
Q Consensus       152 pVliv~~~~  160 (164)
                      ||++||+..
T Consensus       153 pVlvV~~~~  161 (171)
T d2gm3a1         153 PVMTIKRNA  161 (171)
T ss_dssp             CEEEEECCG
T ss_pred             CEEEEeCCC
Confidence            999998754

>d1jmva_ c.26.2.4 (A:) Universal stress protein A, UspA {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Universal stress protein A, UspA
species: Haemophilus influenzae [TaxId: 727]

Probab=99.94  E-value=2.9e-27  Score=151.83  Aligned_cols=138  Identities=21%  Similarity=0.109  Sum_probs=108.3

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      ||++|||++|+++.++.+++||+.+|+..+++|+++||.+.......            .....    ......++..++
T Consensus         1 myk~ILv~vD~s~~s~~al~~A~~~a~~~~~~v~~lhv~~~~~~~~~------------~~~~~----~~~~~~~~~~~~   64 (140)
T d1jmva_           1 MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYT------------GLIDV----NMSSMQDRISTE   64 (140)
T ss_dssp             CCSEEEEEECCSTTHHHHHHHHHHHHHHHTCEEEEEEEEECCGGGCC------------CCEEH----HHHHHTTCCCCH
T ss_pred             CCCeEEEEECCCHHHHHHHHHHHHHHHHcCCeEEEEEEeeecccccc------------ccccc----chHHHHHHHHHH
Confidence            48999999999999999999999999999999999999887643210            00011    112233344566


Q ss_pred             HHHHHHHHhhhcCceEE-EEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           83 VLDILDTLSRTKGAKVV-AKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      +.+.+.+.+...+.... ..+..|++.++|.+++++.++|+||||++++++.   .+||++++++++++||||+||..
T Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~a~~~~~dliV~G~~~~~~~---~lgs~~~~li~~~~~pVliVp~~  139 (140)
T d1jmva_          65 TQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQDFWS---KLMSSTRQVMNTIKIDMLVVPLR  139 (140)
T ss_dssp             HHHHHHHHHHHSSSCCCCEEEEEECHHHHHHHHHHHTTCCEEEEEECCCCHH---HHHHHHHHHHTTCCSEEEEEECC
T ss_pred             HHHHHHHHHHhcCCceEEEEEEecCHHHHHHHhhhhchhhEEEeccCCCCCC---CcccHHHHHHhccCCCEEEEecC
Confidence            67777777776665433 4466789999999999999999999999877643   47999999999999999999964

>d1q77a_ c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Aq 178
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.90  E-value=7.1e-25  Score=140.13  Aligned_cols=137  Identities=15%  Similarity=0.057  Sum_probs=98.3

Q ss_pred             CCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            2 SKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      .+||+||||+|+|+.++.|+++|..+|+..+++|+++||.++......  .....+.+..  ...      .+...+..+
T Consensus         2 ~~mk~ILv~~D~S~~s~~al~~A~~~a~~~~a~l~llhv~~~~~~~~~--~~~~~~~~~~--~~~------~e~~~~~~~   71 (138)
T d1q77a_           2 NAMKVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLER--ANVTFGLPFP--PEI------KEESKKRIE   71 (138)
T ss_dssp             CCCEEEEEEESTTCCCHHHHHHHHHHHTTTCCEEEEEEECHHHHHHHH--HHHHHCCCCC--THH------HHHHHHHHH
T ss_pred             CCCCEEEEEEeCCHHHHHHHHHHHHhhhhccceEEEEEEccCcccccc--cccccccchh--hhh------hhhhhhhcc
Confidence            468999999999999999999999999999999999999875422110  0001111111  111      111112233


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      +.++.+.+.+...+..++.++..|++.+.|.+++++.++||||||+++++.+         .+++..+.+|+||++
T Consensus        72 ~~l~~~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIV~Gs~g~~~l---------~r~l~g~~~~~livk  138 (138)
T d1q77a_          72 RRLREVWEKLTGSTEIPGVEYRIGPLSEEVKKFVEGKGYELVVWACYPSAYL---------CKVIDGLNLASLIVK  138 (138)
T ss_dssp             HHHHHHHHHHHSCCCCCCEEEECSCHHHHHHHHHTTSCCSEEEECSCCGGGT---------HHHHHHSSSEEEECC
T ss_pred             ccchhhcccccccceeEEEeeecchhHHHHHHhhhhccCCEEEEecCCCcHH---------HHHhcCCCCCEEEeC
Confidence            4444444455556888888899999999999999999999999999987654         457777789999875

>d1wy5a1 c.26.2.5 (A:1-216) TilS-like protein Aq_1887 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: PP-loop ATPase
domain: TilS-like protein Aq 1887
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.12  E-value=0.0032  Score=41.41  Aligned_cols=94  Identities=10%  Similarity=-0.012  Sum_probs=66.6

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCC-eEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChh
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGD-LIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPE   82 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~-~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (164)
                      -++|+|+++|..+|-.++..+..+....+. .+.++||...-...                                ...
T Consensus        24 ~~kv~Va~SGG~DS~~Ll~lL~~~~~~~~~~~i~~~~vdh~~r~~--------------------------------s~~   71 (216)
T d1wy5a1          24 ERRVLIAFSGGVDSVVLTDVLLKLKNYFSLKEVALAHFNHMLRES--------------------------------AER   71 (216)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHSTTTTTCSEEEEEEEECCSSTH--------------------------------HHH
T ss_pred             CCeEEEEeCCcHHHHHHHHHHHHHHHhcCCCcEEEEEeecccccc--------------------------------hhh
Confidence            468999999999999888888887776654 79999987553211                                123


Q ss_pred             HHHHHHHHhhhcCceEEEEEee--------C-Ch--------hhHHHHHHHhcCCCEEEEeecC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYW--------G-DP--------REKLCDAVEDLKLDTLVVGSRG  129 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~--------g-~~--------~~~I~~~a~~~~~dliv~g~~~  129 (164)
                      ..+.+.+.|...|+++...-..        + ..        ...+.+.+++.++|.|+.|++.
T Consensus        72 ~~~~~~~~~~~l~i~~~i~~~~~~~~~~~~~~~~~~~~R~~Ry~~l~~~a~~~~~~~ia~GH~~  135 (216)
T d1wy5a1          72 DEEFCKEFAKERNMKIFVGKEDVRAFAKENRMSLEEAGRFLRYKFLKEILESEGFDCIATAHHL  135 (216)
T ss_dssp             HHHHHHHHHHHHTCCEEEEECCHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHTTCSEEECCCCH
T ss_pred             hhhHHHHHHHhhhhhhhhhccchhhhccCCccchHHHHHHHHHHHhhhhccccccceeEeeeec
Confidence            3456777888888887653211        1 11        2456778899999999999874

>d3clsc1 c.26.2.3 (C:1-262) Small, beta subunit of electron transfer flavoprotein ETFP {Methylophilus methylotrophus [TaxId: 17]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ETFP subunits
domain: Small, beta subunit of electron transfer flavoprotein ETFP
species: Methylophilus methylotrophus [TaxId: 17]

Probab=96.64  E-value=0.0029  Score=42.88  Aligned_cols=103  Identities=16%  Similarity=0.112  Sum_probs=66.4

Q ss_pred             CChhhHHHHHHHHHHhccCCC--eEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHH
Q 031202           13 NSPNSKAALRWAADNLIDSGD--LIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTL   90 (164)
Q Consensus        13 ~s~~s~~al~~a~~la~~~~~--~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (164)
                      -++++..|++.|+++....+.  +++++.+-++.                                   .++.+..+...
T Consensus        35 iNp~D~~AlE~Al~lke~~gg~~~Vtvvt~Gp~~-----------------------------------a~~~Lr~alAm   79 (262)
T d3clsc1          35 LNEWDDFSLEEAMKIKESSDTDVEVVVVSVGPDR-----------------------------------VDESLRKCLAK   79 (262)
T ss_dssp             ECHHHHHHHHHHHHHHHHCSSCCEEEEEEESCTT-----------------------------------HHHHHHHHHHT
T ss_pred             cCcccHHHHHHHHHHHhcCCCceEEEEEeccchh-----------------------------------HHHHHHHHHhc
Confidence            467788999999999877655  68888887664                                   12333333333


Q ss_pred             hhhcCceEEEEEeeC-C---hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           91 SRTKGAKVVAKVYWG-D---PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        91 ~~~~~~~~~~~v~~g-~---~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                      ..+.++.+...-..| +   .+..|...++..++|||+.|.....+.    -|.+...+......|.+
T Consensus        80 GaD~avli~d~~~~~~d~~~tA~~lA~~i~~~~~DLIl~G~~s~D~~----~gqvg~~lAe~Lg~P~v  143 (262)
T d3clsc1          80 GADRAVRVWDDAAEGSDAIVVGRILTEVIKKEAPDMVFAGVQSSDQA----YASTGISVASYLNWPHA  143 (262)
T ss_dssp             TCSEEEEECCGGGTTCCHHHHHHHHHHHHHHHCCSEEEEESCCTTTC----CCCHHHHHHHHHTCCEE
T ss_pred             CCCeeEEEeccccccchHHHHHHHHHHHhhccCCcEEEEeeeccCCC----cchHHHHHHHHcCCceE
Confidence            333344443222333 3   467788888999999999997644322    35666667666666654

>d1efpb_ c.26.2.3 (B:) Small, beta subunit of electron transfer flavoprotein ETFP {Paracoccus denitrificans [TaxId: 266]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ETFP subunits
domain: Small, beta subunit of electron transfer flavoprotein ETFP
species: Paracoccus denitrificans [TaxId: 266]

Probab=96.49  E-value=0.0073  Score=40.46  Aligned_cols=103  Identities=13%  Similarity=0.105  Sum_probs=65.4

Q ss_pred             CChhhHHHHHHHHHHhccCCC-eEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHh
Q 031202           13 NSPNSKAALRWAADNLIDSGD-LIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLS   91 (164)
Q Consensus        13 ~s~~s~~al~~a~~la~~~~~-~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (164)
                      -++++..|++.|+++....++ +++++.+-++.                                   .++.+..+....
T Consensus        35 iNp~D~~AlE~Al~lke~~~g~~Vtvls~Gp~~-----------------------------------a~~~lr~alAmG   79 (246)
T d1efpb_          35 MNPFDEIAVEEAIRLKEKGQAEEIIAVSIGVKQ-----------------------------------AAETLRTALAMG   79 (246)
T ss_dssp             ECHHHHHHHHHHHHHHTTTSCSEEEEEEEESGG-----------------------------------GHHHHHHHHHHT
T ss_pred             cCccCHHHHHHHHHHhhcCCCeEEEEEEecCcc-----------------------------------hHHHHHHHHhhc
Confidence            467789999999999988665 89999998774                                   233343433333


Q ss_pred             hhcCceEEEE--EeeC-C---hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEE
Q 031202           92 RTKGAKVVAK--VYWG-D---PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVT  154 (164)
Q Consensus        92 ~~~~~~~~~~--v~~g-~---~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVl  154 (164)
                      .+.++.+...  ...| +   .+..+..+++..++|||+.|.....+.    -|.+.-.+......|.+
T Consensus        80 aD~avli~~~~~~~~~~d~~ata~~la~~~~~~~~DLIl~G~~s~D~~----tgqvg~~lAe~Lg~P~v  144 (246)
T d1efpb_          80 ADRAILVVAADDVQQDIEPLAVAKILAAVARAEGTELIIAGKQAIDND----MNATGQMLAAILGWAQA  144 (246)
T ss_dssp             CSEEEEEECCSSTTCCCCHHHHHHHHHHHHHHHTCSEEEEESCCTTTC----CCCHHHHHHHHHTCEEE
T ss_pred             CChheEEeeccccccccCHHHHHHHHHHHHhhcCCCEEEEEeeecccc----ccchhHHHHHHhhccce
Confidence            3333333221  1123 3   345688888899999999997654332    24555556666665554

>d1ni5a1 c.26.2.5 (A:0-226) tRNA-Ile-lysidine synthetase, TilS, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: PP-loop ATPase
domain: tRNA-Ile-lysidine synthetase, TilS, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.19  E-value=0.035  Score=36.41  Aligned_cols=94  Identities=14%  Similarity=0.074  Sum_probs=63.3

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhcc-CCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLID-SGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      .-++|+|+++|..+|-.++..+..+... .+.++.++|+...-...                                ..
T Consensus        12 ~~kkvlva~SGG~DS~~Ll~ll~~~~~~~~~~~l~~~~vdh~~r~~--------------------------------s~   59 (227)
T d1ni5a1          12 TSRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSAN--------------------------------AD   59 (227)
T ss_dssp             TCSEEEEECCSBHHHHHHHHHHHHHHTTSTTCEEEEEEECCSCCSS--------------------------------HH
T ss_pred             CCCcEEEEecCcHHHHHHHHHHHHHHHhCCCceEEEEEeCCCCCcc--------------------------------hh
Confidence            3479999999999999888888877543 67899999998664211                                23


Q ss_pred             hHHHHHHHHhhhcCceEEEEEe-eC----Chh------hHHHHHHHhcCCCEEEEeec
Q 031202           82 EVLDILDTLSRTKGAKVVAKVY-WG----DPR------EKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~-~g----~~~------~~I~~~a~~~~~dliv~g~~  128 (164)
                      ...+.+.+.|...++++..... ..    +..      ..........+++.|+.|++
T Consensus        60 ~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~i~~gH~  117 (227)
T d1ni5a1          60 AWVTHCENVCQQWQVPLVVERVQLAQEGLGIEAQARQARYQAFARTLLPGEVLVTAQH  117 (227)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECCCCCCSSSTTTTHHHHHHHHHHHHTCCTTEEEECCCC
T ss_pred             hhHHHHHHHHhhccCcceeeeccccccccchhhHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            4556677888888887765421 11    111      12222345677888888865

>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]}

class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: Cryptochrome
species: Synechocystis sp., pcc 6803 [TaxId: 1143]

Probab=95.43  E-value=0.04  Score=35.45  Aligned_cols=103  Identities=17%  Similarity=0.082  Sum_probs=64.6

Q ss_pred             CcEEEEEec--CChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            4 ARTVGVGMD--NSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         4 ~~~ILv~~d--~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      ..++||=+.  .-=.+-.||..|+.    .+..|..++|.++......     ..|.........           ....
T Consensus         5 p~~~lvWfr~DLRl~DN~aL~~A~~----~~~~vi~vyi~dp~~~~~~-----~~~~~~~~~~r~-----------~fl~   64 (204)
T d1np7a2           5 PPTVLVWFRNDLRLHDHEPLHRALK----SGLAITAVYCYDPRQFAQT-----HQGFAKTGPWRS-----------NFLQ   64 (204)
T ss_dssp             CCEEEEEESSCCCSTTCHHHHHHHH----TTSEEEEEEEECGGGGSBC-----TTSCBSSCHHHH-----------HHHH
T ss_pred             CCcEEEEeCCCCccccHHHHHHHHh----cCCcEEEEEEECchHhcCc-----ccccccccHHHH-----------HHHH
Confidence            345665553  22223346666654    5678999999987643210     001110111110           2245


Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      +.+..+++.++..|....  ++.|++.+.|.+.+++++++-|.....
T Consensus        65 ~sL~~L~~~L~~~g~~L~--v~~G~~~~~l~~l~~~~~i~~V~~n~~  109 (204)
T d1np7a2          65 QSVQNLAESLQKVGNKLL--VTTGLPEQVIPQIAKQINAKTIYYHRE  109 (204)
T ss_dssp             HHHHHHHHHHHHTTCCEE--EEESCHHHHHHHHHHHTTEEEEEEECC
T ss_pred             HHHHHHHHHHHhccchhh--hhhhhhHHHHHHHHHHhhhhheeeecc
Confidence            667788888888888876  668999999999999999998887543

>d1efvb_ c.26.2.3 (B:) Small, beta subunit of electron transfer flavoprotein ETFP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ETFP subunits
domain: Small, beta subunit of electron transfer flavoprotein ETFP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.37  E-value=0.087  Score=35.16  Aligned_cols=103  Identities=14%  Similarity=0.098  Sum_probs=62.3

Q ss_pred             ChhhHHHHHHHHHHhccCCC-eEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHHHHhh
Q 031202           14 SPNSKAALRWAADNLIDSGD-LIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILDTLSR   92 (164)
Q Consensus        14 s~~s~~al~~a~~la~~~~~-~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (164)
                      ++++.+|++.|+++....++ .++++..-+..                                   .++.+........
T Consensus        36 Np~D~~AlE~Al~lke~~gg~~v~v~~~gp~~-----------------------------------a~~~lr~ala~Ga   80 (252)
T d1efvb_          36 NPFCEIAVEEAVRLKEKKLVKEVIAVSCGPAQ-----------------------------------CQETIRTALAMGA   80 (252)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCSEEEEEEEESTT-----------------------------------HHHHHHHHHHHTC
T ss_pred             CcccHHHHHHHHHHhhhcCCceEEEEEecchh-----------------------------------HHHHHHHHHhcCC
Confidence            67789999999999987665 56666555543                                   2344444443433


Q ss_pred             hcCceEEEEEee--C-C---hhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEE
Q 031202           93 TKGAKVVAKVYW--G-D---PREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTV  155 (164)
Q Consensus        93 ~~~~~~~~~v~~--g-~---~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVli  155 (164)
                      ..++.+...-..  + +   ....+...++..++|||+.|.....+.    -|.+.-.+......|.+-
T Consensus        81 d~avli~~~~~~~~~~~~~~~a~~~a~~~~~~~~DLIl~G~~s~D~~----tgqVg~~lAe~Lg~P~vt  145 (252)
T d1efvb_          81 DRGIHVEVPPAEAERLGPLQVARVLAKLAEKEKVDLVLLGKQAIDDD----CNQTGQMTAGFLDWPQGT  145 (252)
T ss_dssp             SEEEEEECCHHHHTTCCHHHHHHHHHHHHHHHTCSEEEEESCCTTTC----CCCHHHHHHHHHTCCEEE
T ss_pred             cceEEEEecccccccccHHHHHHHHHHHHhccCCCEEEEeccchhcc----CCcHHHHHHHhcCCCcee
Confidence            334433321111  1 2   235666677778899999997754332    356666677766666553

>d1u11a_ c.23.8.1 (A:) N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) {Acetobacter aceti [TaxId: 435]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
domain: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
species: Acetobacter aceti [TaxId: 435]

Probab=94.36  E-value=0.12  Score=31.90  Aligned_cols=71  Identities=15%  Similarity=0.189  Sum_probs=50.4

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+.+.+.++..|++++..+... ...+.+.+++   +..+++.+|.+....+        ..+.-+.-++..||+-||
T Consensus        16 ~v~~~a~~~L~~~gI~~e~~v~SAHR~p~~l~~~~~~~e~~~~~viIa~AG~aa--------aLpgvva~~t~~PVIgvP   87 (159)
T d1u11a_          16 ETMRHADALLTELEIPHETLIVSAHRTPDRLADYARTAAERGLNVIIAGAGGAA--------HLPGMCAAWTRLPVLGVP   87 (159)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHTTTTTCCEEEEEEESSC--------CHHHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHhCCceEEEEehHhhChHHHHHHHHHHHhcCCeEEEEEecCCC--------CCccceeeecceeEEEec
Confidence            345566677788899999998877 3445555554   4578899988865443        345557778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        88 ~~~   90 (159)
T d1u11a_          88 VES   90 (159)
T ss_dssp             ECC
T ss_pred             ccc
Confidence            654

>d1xmpa_ c.23.8.1 (A:) N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
domain: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
species: Bacillus anthracis [TaxId: 1392]

Probab=94.13  E-value=0.21  Score=30.58  Aligned_cols=71  Identities=14%  Similarity=0.177  Sum_probs=50.4

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+.+.+.+++.|++++.++..+ .-.+.+.+++   ++.+++.+|-+......        .+.-+.-.+..||+=||
T Consensus        15 ~~~~~a~~~L~~~gi~~~~~v~SAHrtp~rl~~~~~~~~~~~~~viIa~AG~aa~--------Lpgvva~~t~~PVIgVP   86 (155)
T d1xmpa_          15 ETMKYACDILDELNIPYEKKVVSAHRTPDYMFEYAETARERGLKVIIAGAGGAAH--------LPGMVAAKTNLPVIGVP   86 (155)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEECCTTTSHHHHHHHHHHTTTTTCCEEEEEEESSCC--------HHHHHHTTCCSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCcEEEEEechhcChHHHHHHHHHHHhhcceEEEeecccCCC--------chhHHHHhccceEEEEE
Confidence            456677778888899999998876 3444554554   45677888877664433        34557778899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        87 ~~~   89 (155)
T d1xmpa_          87 VQS   89 (155)
T ss_dssp             ECC
T ss_pred             eec
Confidence            754

>d1o4va_ c.23.8.1 (A:) N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
domain: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
species: Thermotoga maritima [TaxId: 2336]

Probab=93.80  E-value=0.15  Score=31.75  Aligned_cols=71  Identities=13%  Similarity=0.219  Sum_probs=50.0

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHH---HHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWG-DPREKLCDA---VEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~---a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+++.+.++..|++++..+..+ .-.+.+.++   +++.+++.+|.+..+...        .+.-+.-.++.||+-||
T Consensus        14 ~~~~~a~~~L~~~gi~~~~~v~saHr~p~rl~~~~~~~~~~~~~viIa~AG~aa~--------LpgvvA~~t~~PVIgvP   85 (169)
T d1o4va_          14 PVMKQAAEILEEFGIDYEITIVSAHRTPDRMFEYAKNAEERGIEVIIAGAGGAAH--------LPGMVASITHLPVIGVP   85 (169)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEECCTTTCHHHHHHHHHHTTTTTCCEEEEEEESSCC--------HHHHHHHHCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCcEEEEEeeeecCHHHHHHHHHHHHhcCCeEEEEeecCCcC--------chHHHHHhcceeEEecc
Confidence            455667777788899999998877 334455555   445678888888765543        24456677899999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        86 ~~~   88 (169)
T d1o4va_          86 VKT   88 (169)
T ss_dssp             ECC
T ss_pred             ccc
Confidence            643

>d1qcza_ c.23.8.1 (A:) N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
domain: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
species: Escherichia coli [TaxId: 562]

Probab=93.44  E-value=0.43  Score=29.42  Aligned_cols=71  Identities=10%  Similarity=0.187  Sum_probs=49.9

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCC-hhh---HHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGD-PRE---KLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~-~~~---~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ...+.+.+.++..|++++.++...+ ..+   ++.+.+++.+++.+|-+......        .+.-+.-++..||+=||
T Consensus        15 ~~~~~a~~~L~~~gI~~e~~v~SAHRtp~~l~~~~~~~~~~~~~ViIa~AG~aa~--------LpgvvA~~t~~PVIgVP   86 (163)
T d1qcza_          15 ATMQFAAEIFEILNVPHHVEVVSAHRTPDKLFSFAESAEENGYQVIIAGAGGAAH--------LPGMIAAKTLVPVLGVP   86 (163)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEECCTTTCHHHHHHHHHHTTTTTCSEEEEEECSSCC--------HHHHHHHSCSSCEEEEE
T ss_pred             HHHHHHHHHHHHcCCCeEEEEeccccCHHHHHHHHHHHHHcCCeEEEEeccCCCc--------ccchhhHhccceeeecc
Confidence            4556667777778999999988762 333   44445555778888888754443        34457778999999999


Q ss_pred             CCC
Q 031202          158 GNP  160 (164)
Q Consensus       158 ~~~  160 (164)
                      ...
T Consensus        87 ~~~   89 (163)
T d1qcza_          87 VQS   89 (163)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            754

>d1p3y1_ c.34.1.1 (1:) MrsD {Bacillus sp. hil-y85/54728 [TaxId: 69002]}

class: Alpha and beta proteins (a/b)
fold: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
superfamily: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
family: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
domain: MrsD
species: Bacillus sp. hil-y85/54728 [TaxId: 69002]

Probab=93.21  E-value=0.056  Score=34.33  Aligned_cols=44  Identities=9%  Similarity=-0.001  Sum_probs=29.3

Q ss_pred             HHHHhcCCCEEEEeecCCccccceeec---cchhHHhcCCCccEEEEeC
Q 031202          113 DAVEDLKLDTLVVGSRGLGALKRVLLG---SVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus       113 ~~a~~~~~dliv~g~~~~~~~~~~~~g---s~~~~v~~~~~~pVliv~~  158 (164)
                      ..++.  +|++|+..-..+.+.+...|   +....++...+.|++++|-
T Consensus        75 ~l~~~--aD~~vIaPaTaNtlaKiA~GiaDnL~t~~~la~~~pvviaPa  121 (183)
T d1p3y1_          75 EIGRW--ADIYCIIPATANILGQTANGVAMNLVATTVLAHPHNTIFFPN  121 (183)
T ss_dssp             HHHHH--CSEEEEEEECHHHHHHHHTTCCSSHHHHHHHHSSSCCEEEEC
T ss_pred             ecccc--ccEEEEEecCHHHHHHHHhhhccchhhHHHhhccCceEEEEc
Confidence            33444  49999987655554443333   4556677888899999984

>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Thermus thermophilus [TaxId: 274]

Probab=91.82  E-value=0.14  Score=31.84  Aligned_cols=47  Identities=26%  Similarity=0.246  Sum_probs=38.4

Q ss_pred             ChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           80 NPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      ..+.+..+.+.++..|....  +..|++.+.|.+.+++++++-|.....
T Consensus        49 l~~sL~~L~~~L~~~g~~L~--v~~G~~~~~l~~l~~~~~i~~V~~n~~   95 (170)
T d2j07a2          49 FLENVRALREAYRARGGALW--VLEGLPWEKVPEAARRLKAKAVYALTS   95 (170)
T ss_dssp             HHHHHHHHHHHHHHTTCCEE--EEESCHHHHHHHHHHHTTCSEEEEECC
T ss_pred             HHHHHHHHHHhhhccccchh--hhhhhHHHHHHHHHHHhhhhHHHhhcc
Confidence            34566777777777787775  778999999999999999999998644

>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]}

class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Synechococcus elongatus [TaxId: 32046]

Probab=91.62  E-value=0.077  Score=34.05  Aligned_cols=74  Identities=11%  Similarity=0.129  Sum_probs=50.1

Q ss_pred             ChhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEe
Q 031202           80 NPEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVK  157 (164)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~  157 (164)
                      ..+.+..+.+.++..|....  +..|++.+.+.+.+++.+++.|.....- +.... -.-....+.++...+.+..+.
T Consensus        53 l~~sL~~L~~~L~~~g~~L~--i~~G~~~~~l~~l~~~~~i~~v~~~~~~-~~~~~-~rd~~i~~~~~~~~i~~~~~~  126 (202)
T d1owla2          53 LQGCLQELQQRYQQAGSRLL--LLQGDPQHLIPQLAQQLQAEAVYWNQDI-EPYGR-DRDGQVAAALKTAGIRAVQLW  126 (202)
T ss_dssp             HHHHHHHHHHHHHHHTSCEE--EEESCHHHHHHHHHHHTTCSEEEEECCC-SHHHH-HHHHHHHHHHHHTTCEEEEEC
T ss_pred             HHHHHHHHHHhhhccccceE--EEEeeeeccchhhccccccceeEEeeec-cchhh-hHHHHHhhhhhhccccccccc
Confidence            45667777777777788876  6789999999999999999999987553 32211 112234445555556655553

>d1vbka1 c.26.2.6 (A:176-307) Hypothetical protein PH1313, C-terminal domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ThiI-like
domain: Hypothetical protein PH1313, C-terminal domain
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=91.61  E-value=0.071  Score=31.94  Aligned_cols=85  Identities=13%  Similarity=0.167  Sum_probs=52.5

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHH
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVL   84 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (164)
                      .+.|+.+++.- |.-    |+.+..+.|.+++.+|+......                   .           +...+..
T Consensus         5 Gk~l~LlSGGi-SpV----Aa~lmmkRG~~V~~v~f~~~~~~-------------------~-----------ekv~~l~   49 (132)
T d1vbka1           5 GRMIGILHDEL-SAL----AIFLMMKRGVEVIPVYIGKDDKN-------------------L-----------EKVRSLW   49 (132)
T ss_dssp             CEEEEECSSHH-HHH----HHHHHHHBTCEEEEEEESCSSHH-------------------H-----------HHHHHHH
T ss_pred             ceEEEeecCCc-hHH----HHHHHHHCCCEEEEEEEcCCHHH-------------------H-----------HHHHHHH
Confidence            57778888776 654    45566678999999999433210                   0           1123344


Q ss_pred             HHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeec
Q 031202           85 DILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSR  128 (164)
Q Consensus        85 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~  128 (164)
                      +.+.++.....+++.  +.  ...+...+.|++.+++-++.|-.
T Consensus        50 ~~L~~y~~~~~~~~~--v~--~~~~~~~riA~~~~a~~ivtG~~   89 (132)
T d1vbka1          50 NLLKRYSYGSKGFLV--VA--ESFDRVLKLIRDFGVKGVIKGLR   89 (132)
T ss_dssp             HHHHTTCTTSCCCCE--EE--SSHHHHHHHHHHHTCCEEECCCC
T ss_pred             HHHHHhCCCCCcEEE--Ee--eHHHHHHHHHHHhhhhceEEEEe
Confidence            444444433333333  22  34667888999999999998854

>d2c5sa1 c.26.2.6 (A:174-391) Thiamine biosynthesis protein ThiI, C-terminal domain {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ThiI-like
domain: Thiamine biosynthesis protein ThiI, C-terminal domain
species: Bacillus anthracis [TaxId: 1392]

Probab=91.49  E-value=0.98  Score=28.53  Aligned_cols=35  Identities=20%  Similarity=0.207  Sum_probs=27.0

Q ss_pred             cEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            5 RTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      .+++|+++|..+|-.++..+.    ..|.+++++|+...
T Consensus         5 gKvvv~~SGG~DS~vla~ll~----k~g~~v~av~~~~~   39 (218)
T d2c5sa1           5 GKVMVLLSGGIDSPVAAYLTM----KRGVSVEAVHFHSP   39 (218)
T ss_dssp             EEEEEECCSSSHHHHHHHHHH----HBTEEEEEEEEECT
T ss_pred             CEEEEEecCcHHHHHHHHHHH----HcCCeEEEEEEeCC
Confidence            489999999999976554443    35789999999764

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=91.37  E-value=1.1  Score=28.67  Aligned_cols=111  Identities=20%  Similarity=0.246  Sum_probs=66.9

Q ss_pred             EEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHH
Q 031202            9 VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILD   88 (164)
Q Consensus         9 v~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (164)
                      +...|..-.-.+...|..+.+ .+.++.++....-+                                    -.+.++++
T Consensus        16 vGp~GvGKTTTiaKLA~~~~~-~g~kV~lit~Dt~R------------------------------------~gA~eQL~   58 (207)
T d1ls1a2          16 VGLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQR------------------------------------PAAREQLR   58 (207)
T ss_dssp             ECCTTTTHHHHHHHHHHHHHH-TTCCEEEEECCSSC------------------------------------HHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHH-CCCcEEEEeccccc------------------------------------chHHHHHH
Confidence            444555445566777777654 46676655554332                                    46778888


Q ss_pred             HHhhhcCceEEEEEeeC-ChhhH---HHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcC-CCccEEEEeC
Q 031202           89 TLSRTKGAKVVAKVYWG-DPREK---LCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTN-SSCPVTVVKG  158 (164)
Q Consensus        89 ~~~~~~~~~~~~~v~~g-~~~~~---I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~-~~~pVliv~~  158 (164)
                      .+++..++++.. +... ++.+.   ....++..++|+|++-+.|++......+.... .+.+. .+..+++|..
T Consensus        59 ~~a~~l~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~d~vlIDTaGr~~~d~~~~~el~-~~~~~~~~~~~llv~~  131 (207)
T d1ls1a2          59 LLGEKVGVPVLE-VMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELA-RLKEVLGPDEVLLVLD  131 (207)
T ss_dssp             HHHHHHTCCEEE-CCTTCCHHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHH-HHHHHHCCSEEEEEEE
T ss_pred             HHHHhcCCcccc-ccccchhhHHHHHHHHHHhhccCcceeecccccchhhhhhHHHHH-HHHhhcCCceEEEEec
Confidence            899989998885 3333 44332   34466788899999988887766544333222 22222 2345555543

>d1g5qa_ c.34.1.1 (A:) Epidermin modifying enzyme (peptidyl-cysteine decarboxylase) EpiD {Staphylococcus epidermidis [TaxId: 1282]}

class: Alpha and beta proteins (a/b)
fold: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
superfamily: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
family: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
domain: Epidermin modifying enzyme (peptidyl-cysteine decarboxylase) EpiD
species: Staphylococcus epidermidis [TaxId: 1282]

Probab=91.30  E-value=0.12  Score=32.46  Aligned_cols=35  Identities=9%  Similarity=-0.041  Sum_probs=27.7

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      .+|||+++.||-.+.++.+..-+| ++.+.+|.++-
T Consensus         2 ~~kIll~vtGsiaa~k~~~li~~L-~~~g~~V~vv~   36 (174)
T d1g5qa_           2 YGKLLICATASINVININHYIVEL-KQHFDEVNILF   36 (174)
T ss_dssp             BSCEEEEECSCGGGGGHHHHHHHH-TTTBSCEEEEE
T ss_pred             CCeEEEEEECHHHHHHHHHHHHHH-HHCCCeEEEEE
Confidence            578999999999999999987665 44677777654

>d3clsd1 c.26.2.3 (D:1-192) Large, alpha subunit of electron transfer flavoprotein ETFP, N-terminal domain {Methylophilus methylotrophus [TaxId: 17]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: ETFP subunits
domain: Large, alpha subunit of electron transfer flavoprotein ETFP, N-terminal domain
species: Methylophilus methylotrophus [TaxId: 17]

Probab=90.46  E-value=1.2  Score=27.84  Aligned_cols=38  Identities=13%  Similarity=0.076  Sum_probs=31.2

Q ss_pred             EEEEEecC-----ChhhHHHHHHHHHHhccCCCeEEEEEEeCC
Q 031202            6 TVGVGMDN-----SPNSKAALRWAADNLIDSGDLIILIHVQPP   43 (164)
Q Consensus         6 ~ILv~~d~-----s~~s~~al~~a~~la~~~~~~l~ll~v~~~   43 (164)
                      +|||.++-     .+.+..++..|.+|+...+.+++++-+-..
T Consensus         2 kIlV~~E~~~g~l~~~slEll~~A~~la~~~g~~v~avv~G~~   44 (192)
T d3clsd1           2 KILVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQ   44 (192)
T ss_dssp             EEEEECCEETTEECTHHHHHHHHHHHHCSSTTCEEEEEEESTT
T ss_pred             eEEEEEEccCCEECHHHHHHHHHHHHHHHhcCCcEEEEEeCCc
Confidence            68888863     356789999999999999999999887643

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=88.92  E-value=0.86  Score=27.07  Aligned_cols=71  Identities=20%  Similarity=0.071  Sum_probs=46.7

Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcC--CCccEEEEe
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTN--SSCPVTVVK  157 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~--~~~pVliv~  157 (164)
                      ...+...++..|.++.. .-...+.+.+++.+.+.++|+|.|.........  .+....+.+-..  .++||++=-
T Consensus        20 ~~mva~~l~~~G~~V~~-LG~~~p~e~iv~a~~~~~~d~v~lS~~~~~~~~--~~~~~~~~l~~~~~~~i~iivGG   92 (137)
T d1ccwa_          20 NKILDHAFTNAGFNVVN-IGVLSPQELFIKAAIETKADAILVSSLYGQGEI--DCKGLRQKCDEAGLEGILLYVGG   92 (137)
T ss_dssp             HHHHHHHHHHTTCEEEE-EEEEECHHHHHHHHHHHTCSEEEEEECSSTHHH--HHTTHHHHHHHTTCTTCEEEEEE
T ss_pred             HHHHHHHHHHCCCeEEe-cccccCHHHHHHHHHhcCCCEEEEeeccccchH--HHHHHHHHHHHhccCCCEEEEeC
Confidence            45666777888887765 333468999999999999999999865433322  233444444333  247776543

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=88.62  E-value=1.9  Score=27.52  Aligned_cols=89  Identities=17%  Similarity=0.215  Sum_probs=59.4

Q ss_pred             EEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHH
Q 031202            9 VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILD   88 (164)
Q Consensus         9 v~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (164)
                      |...|+.-.-.+...|..+. ..+.++.++....-+                                    -.+.++++
T Consensus        15 vGptGvGKTTTiAKLA~~~~-~~g~kV~lit~Dt~R------------------------------------~gA~eQL~   57 (211)
T d2qy9a2          15 VGVNGVGKTTTIGKLARQFE-QQGKSVMLAAGDTFR------------------------------------AAAVEQLQ   57 (211)
T ss_dssp             ECCTTSCHHHHHHHHHHHHH-TTTCCEEEECCCTTC------------------------------------HHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHH-HCCCcEEEEeccccc------------------------------------ccchhhhh
Confidence            45556555556666666654 567777666554332                                    46788899


Q ss_pred             HHhhhcCceEEEEEeeC-ChhhHHH---HHHHhcCCCEEEEeecCCccccc
Q 031202           89 TLSRTKGAKVVAKVYWG-DPREKLC---DAVEDLKLDTLVVGSRGLGALKR  135 (164)
Q Consensus        89 ~~~~~~~~~~~~~v~~g-~~~~~I~---~~a~~~~~dliv~g~~~~~~~~~  135 (164)
                      .+++..++.+.. +..+ ++...+.   +.++..++|+|++-+.|++....
T Consensus        58 ~~a~~l~v~~~~-~~~~~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~~~d~  107 (211)
T d2qy9a2          58 VWGQRNNIPVIA-QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKS  107 (211)
T ss_dssp             HHHHHTTCCEEC-CSTTCCHHHHHHHHHHHHHHTTCSEEEECCCCCGGGHH
T ss_pred             hhhhhcCCcccc-cccCCCHHHHHHHHHHHHHHcCCCEEEeccCCCccccH
Confidence            999999999875 3333 5555443   44667889999999888776543

>d2pjua1 c.92.3.1 (A:11-196) Propionate catabolism operon regulatory protein PrpR {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Chelatase-like
superfamily: PrpR receptor domain-like
family: PrpR receptor domain-like
domain: Propionate catabolism operon regulatory protein PrpR
species: Escherichia coli [TaxId: 562]

Probab=88.11  E-value=1.5  Score=27.55  Aligned_cols=66  Identities=12%  Similarity=0.131  Sum_probs=47.1

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHH---HhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAV---EDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a---~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .+.+.+++.+.++.-..+..+..+...+++....   ...++|.||=.            |+++..+=++.+.||+-++.
T Consensus        11 rL~~l~~~i~~ey~~~~~i~v~~~~~e~av~~~~~~~~~~~~DviISR------------G~ta~~ir~~~~iPVV~I~v   78 (186)
T d2pjua1          11 RLFELFRDISLEFDHLANITPIQLGFEKAVTYIRKKLANERCDAIIAA------------GSNGAYLKSRLSVPVILIKP   78 (186)
T ss_dssp             HHHHHHHHHHTTTTTTCEEEEECCCHHHHHHHHHHHTTTSCCSEEEEE------------HHHHHHHHTTCSSCEEEECC
T ss_pred             HHHHHHHHHHHHhcCCceEEeecCcHHHHHHHHHHHHHcCCCCEEEEC------------chHHHHHHHhCCCCEEEEcC
Confidence            4667777888877666666677887777766554   45678888742            55677788888999998874


Q ss_pred             C
Q 031202          159 N  159 (164)
Q Consensus       159 ~  159 (164)
                      .
T Consensus        79 s   79 (186)
T d2pjua1          79 S   79 (186)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=86.13  E-value=2.8  Score=26.64  Aligned_cols=89  Identities=16%  Similarity=0.117  Sum_probs=58.2

Q ss_pred             EEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHHH
Q 031202            9 VGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDILD   88 (164)
Q Consensus         9 v~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (164)
                      |...|+.-.-.+...|..+. ..+.++.++....-+                                    -.+.++++
T Consensus        12 vGptGvGKTTTiaKLA~~~~-~~g~kV~lit~Dt~R------------------------------------~gA~eQL~   54 (207)
T d1okkd2          12 VGVNGVGKTTTIAKLGRYYQ-NLGKKVMFCAGDTFR------------------------------------AAGGTQLS   54 (207)
T ss_dssp             ECSTTSSHHHHHHHHHHHHH-TTTCCEEEECCCCSS------------------------------------TTHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEecccc------------------------------------ccchhhHh
Confidence            44455544455666666554 456777665554333                                    36677888


Q ss_pred             HHhhhcCceEEEEEeeCChhhHHHH---HHHhcCCCEEEEeecCCcccc
Q 031202           89 TLSRTKGAKVVAKVYWGDPREKLCD---AVEDLKLDTLVVGSRGLGALK  134 (164)
Q Consensus        89 ~~~~~~~~~~~~~v~~g~~~~~I~~---~a~~~~~dliv~g~~~~~~~~  134 (164)
                      .+++..++.+.......++...+.+   .++..++|+|++-+.|++...
T Consensus        55 ~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d  103 (207)
T d1okkd2          55 EWGKRLSIPVIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTK  103 (207)
T ss_dssp             HHHHHHTCCEECCCTTCCHHHHHHHHHHHHHHHTCSEEEECCCCCCTTC
T ss_pred             hcccccCceEEeccCCccHHHHHHHHHHHHHHCCCCEEEcCccccchhh
Confidence            8888889987753333466666544   456678899999988877654

>d1xkya1 c.1.10.1 (A:1-292) Dihydrodipicolinate synthase {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Dihydrodipicolinate synthase
species: Bacillus anthracis [TaxId: 1392]

Probab=85.74  E-value=3  Score=27.65  Aligned_cols=64  Identities=9%  Similarity=0.081  Sum_probs=38.7

Q ss_pred             CceEEEEEeeCChhh--HHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeC
Q 031202           95 GAKVVAKVYWGDPRE--KLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKG  158 (164)
Q Consensus        95 ~~~~~~~v~~g~~~~--~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~  158 (164)
                      .+.+-.-+...+..+  ...+.+++.++|.+.+.........+--+-.--+.|...+++|++++.-
T Consensus        72 ~~~vi~gv~~~s~~~~i~~a~~a~~~Gad~ilv~pP~~~~~s~~~i~~~~~~v~~~~~~pi~iYn~  137 (292)
T d1xkya1          72 RVPVIAGTGSNNTHASIDLTKKATEVGVDAVMLVAPYYNKPSQEGMYQHFKAIAESTPLPVMLYNV  137 (292)
T ss_dssp             SSCEEEECCCSCHHHHHHHHHHHHHTTCSEEEEECCCSSCCCHHHHHHHHHHHHHTCSSCEEEEEC
T ss_pred             CceEEEecCcccHHHHHHHHHHHHHcCCCEEEECCCCCCCCCHHHHHHHHHHHhccCCCcEEEEeC
Confidence            444544344344443  5667799999999888754322211111112345788899999999864

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=84.88  E-value=3.3  Score=26.40  Aligned_cols=92  Identities=16%  Similarity=0.215  Sum_probs=61.4

Q ss_pred             EEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhHHHHH
Q 031202            8 GVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEVLDIL   87 (164)
Q Consensus         8 Lv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (164)
                      ||...|+.-.-.+...|.++. ..+.++.++....-+                                    -.+.+++
T Consensus        16 lvGptGvGKTTTiAKLAa~~~-~~~~kV~lit~Dt~R------------------------------------~gA~eQL   58 (213)
T d1vmaa2          16 VVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAADTFR------------------------------------AAAIEQL   58 (213)
T ss_dssp             EECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEECTTC------------------------------------HHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHH-HCCCceEEEeecccc------------------------------------cchhHHH
Confidence            345566655556667777664 456788887776544                                    4677888


Q ss_pred             HHHhhhcCceEEEEEeeCChhhH---HHHHHHhcCCCEEEEeecCCccccce
Q 031202           88 DTLSRTKGAKVVAKVYWGDPREK---LCDAVEDLKLDTLVVGSRGLGALKRV  136 (164)
Q Consensus        88 ~~~~~~~~~~~~~~v~~g~~~~~---I~~~a~~~~~dliv~g~~~~~~~~~~  136 (164)
                      +.+++..++.+...-...++...   ........++|+|++-+.|++.....
T Consensus        59 ~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~  110 (213)
T d1vmaa2          59 KIWGERVGATVISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKN  110 (213)
T ss_dssp             HHHHHHHTCEEECCSTTCCHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHH
T ss_pred             HHHhhhcCccccccCCCCcHHHHHHHHHHHHHHcCCCEEEEeccccccchHH
Confidence            98998889988753222355443   23445567889999998888765443

>d2d13a1 c.26.2.1 (A:2-227) Hypothetical protein PH1257 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: N-type ATP pyrophosphatases
domain: Hypothetical protein PH1257
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=84.62  E-value=3.6  Score=26.54  Aligned_cols=92  Identities=23%  Similarity=0.288  Sum_probs=54.1

Q ss_pred             CCcEEEEEecCChhhHHHHHHHHHHhccCCCeEE-EEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCCh
Q 031202            3 KARTVGVGMDNSPNSKAALRWAADNLIDSGDLII-LIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNP   81 (164)
Q Consensus         3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~-ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
                      .|.+|+|.++|.++|-.|+-+|.+    .+-++. ++++.+......      +.+                       .
T Consensus         2 ~~~~V~vl~SGGKDS~lAl~~a~~----~G~eV~~L~t~~~~~~~s~------~~h-----------------------~   48 (226)
T d2d13a1           2 GLADVAVLYSGGKDSNYALYWALK----SGLRVRYLVSMVSENEESY------MYH-----------------------T   48 (226)
T ss_dssp             CSCEEEEECCSSHHHHHHHHHHHH----TTCEEEEEEEEECCC-------------------------------------
T ss_pred             CceeEEEEecCcHHHHHHHHHHHH----cCCeeEEEEEEecCCCCcC------ccc-----------------------C
Confidence            467999999999999877665544    455555 555555432110      000                       0


Q ss_pred             hHHHHHHHHhhhcCceEEEEEee---CChhhHHHHHHHhcCCCEEEEee
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYW---GDPREKLCDAVEDLKLDTLVVGS  127 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~---g~~~~~I~~~a~~~~~dliv~g~  127 (164)
                      -..+.+..+++..|++.......   .+..+.+.+..++.+++.++-|.
T Consensus        49 ~~~~ll~~qAealgiPl~~~~~~~~~e~~~~~l~~~l~~~~v~~vv~Gd   97 (226)
T d2d13a1          49 PNVELTSLQARALGIPIIKGFTKGEKEKEVEDLKNVLEGLKVDGIVAGA   97 (226)
T ss_dssp             -CCTTHHHHHHHHTCCEEEEEC--CTTSHHHHHHHHHHTBCCSEEECCC
T ss_pred             CCHHHHHHHHHhcCCCceEEecCCcchHHHHHHHHHHHhcCccceEecc
Confidence            11223344455557775544332   35667788888888888888875

>d2at2a1 c.78.1.1 (A:1-144) Aspartate carbamoyltransferase catalytic subunit {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: ATC-like
superfamily: Aspartate/ornithine carbamoyltransferase
family: Aspartate/ornithine carbamoyltransferase
domain: Aspartate carbamoyltransferase catalytic subunit
species: Bacillus subtilis [TaxId: 1423]

Probab=84.61  E-value=2.6  Score=25.05  Aligned_cols=43  Identities=14%  Similarity=0.210  Sum_probs=25.6

Q ss_pred             CChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEE
Q 031202          105 GDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVV  156 (164)
Q Consensus       105 g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv  156 (164)
                      |.......+......+|++|+......         ..+.+.+.+.+||+=.
T Consensus        78 gEs~~d~~~~l~~~~~d~iv~R~~~~~---------~~~~~a~~~~vPvINa  120 (144)
T d2at2a1          78 GETLYDTIRTLESIGVDVCVIRHSEDE---------YYEELVSQVNIPILNA  120 (144)
T ss_pred             chHHHHHHHHHhhcceeEEEeeccccc---------ccccccccCceeEEEC
Confidence            433444444455556899999765432         2444566778887753

>d1ycga1 c.23.5.1 (A:251-399) Nitric oxide reductase C-terminal domain {Moorella thermoacetica [TaxId: 1525]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Flavoproteins
family: Flavodoxin-related
domain: Nitric oxide reductase C-terminal domain
species: Moorella thermoacetica [TaxId: 1525]

Probab=84.05  E-value=2.7  Score=24.72  Aligned_cols=49  Identities=16%  Similarity=0.125  Sum_probs=32.9

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCc
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLG  131 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~  131 (164)
                      +++.+.+.+.+...|+.++..-......+.+.....+.  |+||+|+....
T Consensus        17 ~~vA~~Ia~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~--d~ii~Gspt~~   65 (149)
T d1ycga1          17 EKMAHALMDGLVAGGCEVKLFKLSVSDRNDVIKEILDA--RAVLVGSPTIN   65 (149)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEGGGSCHHHHHHHHHHC--SEEEEECCCBT
T ss_pred             HHHHHHHHHHHHhcCCeeEEEEccccchHHHhhhhhhC--CeEEEEeeccc
Confidence            56677777777788888886533443445555555554  99999987543

>d1w25a1 c.23.1.1 (A:2-140) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

Probab=83.58  E-value=2.3  Score=24.90  Aligned_cols=73  Identities=10%  Similarity=0.003  Sum_probs=40.9

Q ss_pred             hHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           82 EVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ...+.+...+...|.++..   ..+..++ ++.+++..+|+|++...- ....+.-+-......-....+||+++-..
T Consensus        12 ~~~~~l~~~L~~~g~~v~~---a~~~~ea-l~~~~~~~~dlil~D~~~-p~~~G~~~~~~ir~~~~~~~~piI~lt~~   84 (139)
T d1w25a1          12 ANVRLLEAKLTAEYYEVST---AMDGPTA-LAMAARDLPDIILLDVMM-PGMDGFTVCRKLKDDPTTRHIPVVLITAL   84 (139)
T ss_dssp             THHHHHHHHHHHTTCEEEE---ESSHHHH-HHHHHHHCCSEEEEESCC-SSSCHHHHHHHHHHSTTTTTSCEEEEECS
T ss_pred             HHHHHHHHHHHHCCCEEEE---Eccchhh-hhhhhcccceeeeeeccc-cCCCchHHHHHhhhcccccCCCEEEEEcC
Confidence            4566677777788876642   3454444 456677889999998542 22221111111111122345899998643

>d1qzua_ c.34.1.1 (A:) 4'-phosphopantothenoylcysteine decarboxylase (PPC decarboxylase, halotolerance protein Hal3a) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
superfamily: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
family: Homo-oligomeric flavin-containing Cys decarboxylases, HFCD
domain: 4'-phosphopantothenoylcysteine decarboxylase (PPC decarboxylase, halotolerance protein Hal3a)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.51  E-value=0.77  Score=28.77  Aligned_cols=39  Identities=18%  Similarity=0.078  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEE
Q 031202            1 MSKARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIH   39 (164)
Q Consensus         1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~   39 (164)
                      |..-.+||+++.||-.+.++.+...+|.+..|.+|.++-
T Consensus         1 m~~k~~Ill~vtGSIAayk~~~lv~~L~~~~g~~V~vi~   39 (181)
T d1qzua_           1 MERKFHVLVGVTGSVAALKLPLLVSKLLDIPGLEVAVVT   39 (181)
T ss_dssp             CCSSEEEEEEECSSGGGGTHHHHHHHHC---CEEEEEEE
T ss_pred             CCCCCEEEEEEecHHHHHHHHHHHHHHHHHcCCEEEEEE
Confidence            444458999999999999999988888887788877654

>d7reqa2 c.23.6.1 (A:561-728) Methylmalonyl-CoA mutase alpha subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=83.37  E-value=3.4  Score=25.32  Aligned_cols=69  Identities=16%  Similarity=0.095  Sum_probs=43.4

Q ss_pred             HHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcC--CCccEEE
Q 031202           84 LDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTN--SSCPVTV  155 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~--~~~pVli  155 (164)
                      ...+...++..|.++.. .-...+.+++.+.+.+.++|+|.+.+.......  .+..+.+.+-..  .++||++
T Consensus        54 ~~~va~~l~~~G~eVi~-lg~~~~~e~iv~aa~~~~advI~iSs~~~~~~~--~~~~l~~~L~~~g~~~v~Viv  124 (168)
T d7reqa2          54 QKVIATAYADLGFDVDV-GPLFQTPEETARQAVEADVHVVGVSSLAGGHLT--LVPALRKELDKLGRPDILITV  124 (168)
T ss_dssp             HHHHHHHHHHTTCEEEE-CCTTBCHHHHHHHHHHHTCSEEEEEECSSCHHH--HHHHHHHHHHHTTCTTSEEEE
T ss_pred             HHHHHHHHHhCCcceec-CCCcCcHHHHHHHHHccCCCEEEEecCcccchH--HHHHHHHHHHhcCCCCeEEEE
Confidence            34556677888976542 112258899999999999999999876444332  233444444333  2355544

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.70  E-value=2.8  Score=23.86  Aligned_cols=71  Identities=10%  Similarity=0.196  Sum_probs=44.6

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGN  159 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~  159 (164)
                      ....+.+...++..|.++..   ..+..++ ++..++.++|+|++... .....++   ...+.+-.+.++||+++-..
T Consensus        12 ~~~~~~l~~~L~~~g~~v~~---a~~~~~a-l~~l~~~~~dlii~D~~-mp~~~G~---~~~~~~r~~~~~pii~lt~~   82 (121)
T d1xhfa1          12 LVTRNTLKSIFEAEGYDVFE---ATDGAEM-HQILSEYDINLVIMDIN-LPGKNGL---LLARELREQANVALMFLTGR   82 (121)
T ss_dssp             HHHHHHHHHHHHTTTCEEEE---ESSHHHH-HHHHHHSCCSEEEECSS-CSSSCHH---HHHHHHHHHCCCEEEEEESC
T ss_pred             HHHHHHHHHHHHHCCCEEEE---ECChHHH-HHHHHhcCCCEEEeecc-cCCccCc---HHHHHHHhcCCCcEEEEECC
Confidence            45667777888888876653   3444444 55556788999999854 2222222   23444545567999988653

>d1zuna1 c.26.2.2 (A:1-211) Sulfate adenylyltransferase subunit 2, CysD {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: PAPS reductase-like
domain: Sulfate adenylyltransferase subunit 2, CysD
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=82.56  E-value=2.4  Score=25.90  Aligned_cols=42  Identities=12%  Similarity=0.003  Sum_probs=33.3

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCC
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNA   45 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~   45 (164)
                      +.+|+|+++|..+|..++..+.......+..+.++++.....
T Consensus        26 ~d~i~va~SGGKDS~vlL~L~~~~~~~~~~~~~~v~~d~~~~   67 (211)
T d1zuna1          26 FDNPVMLYSIGKDSAVMLHLARKAFFPGKLPFPVMHVDTRWK   67 (211)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHHHHTTSCCSSCEEEECCSCC
T ss_pred             cCCEEEEeCCcHHHHHHHHHHHhhcccccCCeeEEEecCccc
Confidence            467999999999999888888777776677777777776653

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=81.13  E-value=3.1  Score=23.43  Aligned_cols=72  Identities=18%  Similarity=0.233  Sum_probs=45.9

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCCccEEEEeCCC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSSCPVTVVKGNP  160 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~~pVliv~~~~  160 (164)
                      ....+.+...++..|.++..   ..+.. +-++.+++..+|+|++... -+...+   -.....+-+..++||+++-...
T Consensus        10 ~~~~~~l~~~L~~~g~~v~~---a~~~~-eal~~~~~~~~dlillD~~-mp~~~G---~~~~~~i~~~~~~pvI~lt~~~   81 (117)
T d2a9pa1          10 KPISDIIKFNMTKEGYEVVT---AFNGR-EALEQFEAEQPDIIILDLM-LPEIDG---LEVAKTIRKTSSVPILMLSAKD   81 (117)
T ss_dssp             HHHHHHHHHHHHHTTCEEEE---ESSHH-HHHHHHHHHCCSEEEECSS-CSSSCH---HHHHHHHHTTCCCCEEEEESCC
T ss_pred             HHHHHHHHHHHHHCCCEEEE---ECCHH-HHHHHHHhcCCCEEEeccc-cCCCCc---cHHHHHHHhCCCCCEEEEecCC
Confidence            45566777777788887653   34444 4455667788999999864 222222   1345666566679999886543

>d1nhpa2 c.3.1.5 (A:120-242) NADH peroxidase {Enterococcus faecalis [TaxId: 1351]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD/NAD-linked reductases, N-terminal and central domains
domain: NADH peroxidase
species: Enterococcus faecalis [TaxId: 1351]

Probab=81.02  E-value=1.2  Score=25.72  Aligned_cols=61  Identities=15%  Similarity=0.104  Sum_probs=35.2

Q ss_pred             CcEEEEEecCChhhHHHHHHHHHHhccCCCeEEEEEEeCCCCCcccccccccCCCCCCChhhHHHhhhhhhhcCCCChhH
Q 031202            4 ARTVGVGMDNSPNSKAALRWAADNLIDSGDLIILIHVQPPNADHTRKQLFEDTGSPLVPLEEFREINFSKQYGLTSNPEV   83 (164)
Q Consensus         4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (164)
                      .++|+|.  |.  ....++.|..+++ .+.+++++...+.....                              ....+.
T Consensus        30 ~k~vvVi--Gg--G~iG~E~A~~l~~-~g~~Vtlie~~~~~l~~------------------------------~~d~~~   74 (123)
T d1nhpa2          30 VNNVVVI--GS--GYIGIEAAEAFAK-AGKKVTVIDILDRPLGV------------------------------YLDKEF   74 (123)
T ss_dssp             CCEEEEE--CC--SHHHHHHHHHHHH-TTCEEEEEESSSSTTTT------------------------------TCCHHH
T ss_pred             CCEEEEE--CC--hHHHHHHHHHhhc-cceEEEEEEecCccccc------------------------------ccchhh
Confidence            3455544  22  2335666666554 68899998776543211                              112456


Q ss_pred             HHHHHHHhhhcCceEE
Q 031202           84 LDILDTLSRTKGAKVV   99 (164)
Q Consensus        84 ~~~~~~~~~~~~~~~~   99 (164)
                      .+.+.+.+++.|+++.
T Consensus        75 ~~~~~~~l~~~gv~~~   90 (123)
T d1nhpa2          75 TDVLTEEMEANNITIA   90 (123)
T ss_dssp             HHHHHHHHHTTTEEEE
T ss_pred             HHHHHHHhhcCCeEEE
Confidence            6677777777777654

>d1mb3a_ c.23.1.1 (A:) Cell division response regulator DivK {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Cell division response regulator DivK
species: Caulobacter crescentus [TaxId: 155892]

Probab=80.90  E-value=3.3  Score=23.50  Aligned_cols=70  Identities=13%  Similarity=0.196  Sum_probs=40.9

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHh---cCCCccEEEEe
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVV---TNSSCPVTVVK  157 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~---~~~~~pVliv~  157 (164)
                      ....+.+...++..|.++..   ..+..++ ++.+++..+|+|++--. -....++   ...+.+=   ....+||+++-
T Consensus        11 ~~~~~~l~~~L~~~g~~v~~---a~~~~~a-l~~~~~~~~dlil~D~~-mp~~dG~---el~~~ir~~~~~~~iPii~lt   82 (123)
T d1mb3a_          11 ELNMKLFHDLLEAQGYETLQ---TREGLSA-LSIARENKPDLILMDIQ-LPEISGL---EVTKWLKEDDDLAHIPVVAVT   82 (123)
T ss_dssp             HHHHHHHHHHHHHTTCEEEE---ESCHHHH-HHHHHHHCCSEEEEESB-CSSSBHH---HHHHHHHHSTTTTTSCEEEEC
T ss_pred             HHHHHHHHHHHHHCCCEEEE---ECCHHHH-HHHHHhCCCCEEEEEec-cCCCcHH---HHHHHHHhCCCcCCCCeEEEE
Confidence            45566777788888887653   3444444 45667788999999754 2222222   1233332   22457988875


Q ss_pred             C
Q 031202          158 G  158 (164)
Q Consensus       158 ~  158 (164)
                      .
T Consensus        83 ~   83 (123)
T d1mb3a_          83 A   83 (123)
T ss_dssp             -
T ss_pred             E
Confidence            3

>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Hypothetical protein BH3024
species: Bacillus halodurans [TaxId: 86665]

Probab=80.57  E-value=3.4  Score=23.42  Aligned_cols=71  Identities=17%  Similarity=0.138  Sum_probs=43.4

Q ss_pred             hhHHHHHHHHhhhcCceEEEEEeeCChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcC-CCccEEEEeC
Q 031202           81 PEVLDILDTLSRTKGAKVVAKVYWGDPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTN-SSCPVTVVKG  158 (164)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~-~~~pVliv~~  158 (164)
                      ....+.+...++..|..+.+   ..+..+++....+...+|+|++-.. -....++   .....+=.. ...||+++-.
T Consensus        12 ~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~~dliilD~~-lp~~~G~---el~~~ir~~~~~~pii~lt~   83 (118)
T d2b4aa1          12 PSHATLIQYHLNQLGAEVTV---HPSGSAFFQHRSQLSTCDLLIVSDQ-LVDLSIF---SLLDIVKEQTKQPSVLILTT   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCEEEE---ESSHHHHHHTGGGGGSCSEEEEETT-CTTSCHH---HHHHHHTTSSSCCEEEEEES
T ss_pred             HHHHHHHHHHHHhcCCCeEE---ECCHHHHHHHHHhcCCCCEEEEeCC-CCCCCHH---HHHHHHHhcCCCCcEEEEEC
Confidence            45667777788888886664   4455566655666678999999764 2222221   223434323 2489998853

>d2bona1 e.52.1.2 (A:5-299) Lipid kinase YegS {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: NAD kinase/diacylglycerol kinase-like
superfamily: NAD kinase/diacylglycerol kinase-like
family: Diacylglycerol kinase-like
domain: Lipid kinase YegS
species: Escherichia coli [TaxId: 562]

Probab=80.37  E-value=3.1  Score=27.59  Aligned_cols=72  Identities=14%  Similarity=0.254  Sum_probs=45.3

Q ss_pred             HHHHHHHHhhhcCceEEEEEeeC-ChhhHHHHHHHhcCCCEEEEeecCCccccceeeccchhHHhcCCC--c-cEEEEeC
Q 031202           83 VLDILDTLSRTKGAKVVAKVYWG-DPREKLCDAVEDLKLDTLVVGSRGLGALKRVLLGSVSNHVVTNSS--C-PVTVVKG  158 (164)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliv~g~~~~~~~~~~~~gs~~~~v~~~~~--~-pVliv~~  158 (164)
                      ...++.+.+++.|++++...... .-+..+.+.+...++|.||++.-.-+      +..++..++....  . |+-|+|-
T Consensus        16 ~~~~~~~~l~~~g~~~~v~~T~~~g~a~~~~~~~~~~~~d~Ivv~GGDGT------v~ev~~gl~~~~~~~~p~lgilP~   89 (295)
T d2bona1          16 PLREAIMLLREEGMTIHVRVTWEKGDAARYVEEARKFGVATVIAGGGDGT------INEVSTALIQCEGDDIPALGILPL   89 (295)
T ss_dssp             HHHHHHHHHHTTTCCEEEEECCSTTHHHHHHHHHHHHTCSEEEEEESHHH------HHHHHHHHHHCCSSCCCEEEEEEC
T ss_pred             HHHHHHHHHHHCCCEEEEEEcCCcchHHHHHHHHHhcCCCEEEEECCCcH------HHHHHHHHHhccCCCCceEEEEEC
Confidence            34556667778899998876554 45778888888888998888543211      2234444544332  3 4657785


Q ss_pred             CC
Q 031202          159 NP  160 (164)
Q Consensus       159 ~~  160 (164)
                      .+
T Consensus        90 GT   91 (295)
T d2bona1          90 GT   91 (295)
T ss_dssp             SS
T ss_pred             Cc
Confidence            44