Psyllid ID: psy3866

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70
Protein Sequence
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPYA
Secondary Structure (PSIPRED)
ccccccEEEEEEcccccHHHHHHHHHHcccccccccEEEEEEEEEEEccccccccHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEcccccHHHHHHHHHHccccccccEEEEEEEEEEEEcccEEEccccccccccccccccc
Coil and Loop (DISEMBL)
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIyiddgsisqvsksklnpnfgsvcpya
Flexible Loop (DISEMBL)
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSisqvsksklnpnfgsvcpya
Low Complexity Region (SEG)
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPYA
Disordered region (IsUnstruct)
*********VAF*****SMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI*******************
Disordered Region (DISOPRED)
***PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS***********G*VCPY*
Disordered Region (DISEMBL)
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPYA
Disordered Region (DISPRO)
***PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSK*****NFGSVCPY*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPYA
Positional Conservation
no confident homologs detected

---

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	70	2.2.26 [Sep-21-2011]
Q28ES8	516	Cytoplasmic tRNA 2-thiola	yes	N/A	0.9	0.122	0.365	8e-05
Q6DC53	501	Cytoplasmic tRNA 2-thiola	yes	N/A	0.657	0.091	0.434	0.0003

>sp|Q28ES8|CTU2_XENTR Cytoplasmic tRNA 2-thiolation protein 2 OS=Xenopus tropicalis GN=ctu2 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 37/63 (58%)

Query: 4   PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNF 63
           P +KVL+AFSG  SS A++  +QEGM   + K++ F    ++ID+G+   +S  +   N 
Sbjct: 68  PGEKVLLAFSGGPSSSAMVQQVQEGMSRDAPKKLRFVPGILFIDEGTTCGMSHEERQQNM 127

Query: 64  GSV 66
             V
Sbjct: 128 SEV 130

Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). May act by forming a heterodimer with atpbd3/ncs6 that ligates sulfur from thiocarboxylated urm1 onto the uridine of tRNAs at wobble position.
Xenopus tropicalis (taxid: 8364)

>sp|Q6DC53|CTU2_DANRE Cytoplasmic tRNA 2-thiolation protein 2 OS=Danio rerio GN=ctu2 PE=2 SV=1

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 30/46 (65%)

Query: 4   PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
           PQ+KVL+A SG  +S  +L  +QEG+   + K++ F    +YIDDG
Sbjct: 70  PQEKVLLAVSGGAASCTMLSQVQEGLSRDAPKKLRFMPGIVYIDDG 115

Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). May act by forming a heterodimer with ctu1/atpbd3 that ligates sulfur from thiocarboxylated urm1 onto the uridine of tRNAs at wobble position.

Danio rerio (taxid: 7955)

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	70
242017076	373	conserved hypothetical protein [Pediculu	0.814	0.152	0.459	1e-07
196004278	456	hypothetical protein TRIADDRAFT_55610 [T	0.828	0.127	0.413	1e-05
390340889	410	PREDICTED: cytoplasmic tRNA 2-thiolation	0.885	0.151	0.419	2e-05
443701547	452	hypothetical protein CAPTEDRAFT_223722 [	0.7	0.108	0.469	2e-05
307178089	934	Fatty-acid amide hydrolase 2 [Camponotus	0.728	0.054	0.450	3e-05
340377678	412	PREDICTED: cytoplasmic tRNA 2-thiolation	0.728	0.123	0.470	5e-05
427782915	423	Hypothetical protein [Rhipicephalus pulc	0.728	0.120	0.461	6e-05
242001366	425	conserved hypothetical protein [Ixodes s	0.871	0.143	0.428	0.0001
260829697	423	hypothetical protein BRAFLDRAFT_264956 [	0.757	0.125	0.462	0.0003
332373848	402	unknown [Dendroctonus ponderosae]	0.7	0.121	0.367	0.0003

>gi|242017076|ref|XP_002429019.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212513865|gb|EEB16281.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score = 60.1 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 40/61 (65%), Gaps = 4/61 (6%)

Query: 2  MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNP 61
          M+P D VLVA+SGS +S ALLH+L  G+    HK+ LF V   +ID+G++ +     LNP
Sbjct: 1  MKPNDNVLVAYSGSQASTALLHMLYSGLSEKHHKKFLFKVIVFFIDEGALFE----NLNP 56

Query: 62 N 62
          +
Sbjct: 57 D 57

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|196004278|ref|XP_002112006.1| hypothetical protein TRIADDRAFT_55610 [Trichoplax adhaerens] gi|190585905|gb|EDV25973.1| hypothetical protein TRIADDRAFT_55610 [Trichoplax adhaerens]

 Score = 53.9 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/58 (41%), Positives = 42/58 (72%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSK 58
           ++R  +KVL+AFSG   S A+L+L+ EG+  + HK++ F    ++IDDG+I Q+S+++
Sbjct: 61  LIRSNEKVLLAFSGGPRSSAMLYLVHEGLSENIHKKLRFLPGVVFIDDGAILQLSENE 118

Source: Trichoplax adhaerens

Species: Trichoplax adhaerens

Genus: Trichoplax

Phylum: Placozoa

Superkingdom: Eukaryota

>gi|390340889|ref|XP_790635.3| PREDICTED: cytoplasmic tRNA 2-thiolation protein 2-like [Strongylocentrotus purpuratus]

 Score = 53.5 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/62 (41%), Positives = 38/62 (61%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLN 60
           ++R ++KVL+AFSG  +S A+  L+ EG   + HKR  F    IYIDDG I+Q +  +  
Sbjct: 63  LIRDKEKVLIAFSGGQNSSAVARLIHEGRSENQHKRFRFVPSLIYIDDGIITQQTPEERR 122

Query: 61  PN 62
            N
Sbjct: 123 AN 124

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|443701547|gb|ELT99947.1| hypothetical protein CAPTEDRAFT_223722 [Capitella teleta]

 Score = 52.8 bits (125), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 36/49 (73%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
           ++R +++VLVA SG  +S A+LHL+QEG    +HK++ FS   ++IDDG
Sbjct: 65  LIRDKEQVLVAHSGGPASCAMLHLIQEGTSRRAHKKLRFSSVLVFIDDG 113

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|307178089|gb|EFN66916.1| Fatty-acid amide hydrolase 2 [Camponotus floridanus]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/51 (45%), Positives = 34/51 (66%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI 51
           ++R  D +LV  SG  +S  LLHL++ GM  S+HK+++F    +YIDDG I
Sbjct: 544 IIRQGDSILVDHSGELNSTVLLHLIKSGMSQSAHKKLIFKTLILYIDDGDI 594

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340377678|ref|XP_003387356.1| PREDICTED: cytoplasmic tRNA 2-thiolation protein 2 A-like [Amphimedon queenslandica]

 Score = 52.0 bits (123), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 36/51 (70%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI 51
           ++R  ++VL+AFSG  SS  LLHL+QEG+   + KR+ F+   IYID+G +
Sbjct: 65  LIRQGEEVLLAFSGGQSSRVLLHLVQEGLSEHAVKRLRFTPIIIYIDEGVV 115

Source: Amphimedon queenslandica

Species: Amphimedon queenslandica

Genus: Amphimedon

Family: Niphatidae

Order: Haplosclerida

Class: Demospongiae

Phylum: Porifera

Superkingdom: Eukaryota

>gi|427782915|gb|JAA56909.1| Hypothetical protein [Rhipicephalus pulchellus]

 Score = 51.6 bits (122), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/52 (46%), Positives = 37/52 (71%), Gaps = 1/52 (1%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYI-DDGSI 51
           +++P +KVLVAFSG  SS A+L LL++G    +HK++LF    +Y+ DD S+
Sbjct: 72  LLKPGNKVLVAFSGGPSSAAMLRLLRDGFSEDTHKKLLFEPSLVYVYDDSSV 123

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242001366|ref|XP_002435326.1| conserved hypothetical protein [Ixodes scapularis] gi|215498656|gb|EEC08150.1| conserved hypothetical protein [Ixodes scapularis]

 Score = 50.4 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/63 (42%), Positives = 39/63 (61%), Gaps = 2/63 (3%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLN 60
           +++P+ K+LVAFSG  SS A+L LL +G    +HKR LF     +IDD   S   KS+ +
Sbjct: 68  LIKPKQKILVAFSGGPSSAAMLTLLLDGFAEDAHKRFLFEPHLAHIDDSVAS--GKSEAD 125

Query: 61  PNF 63
           P+ 
Sbjct: 126 PSL 128

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260829697|ref|XP_002609798.1| hypothetical protein BRAFLDRAFT_264956 [Branchiostoma floridae] gi|229295160|gb|EEN65808.1| hypothetical protein BRAFLDRAFT_264956 [Branchiostoma floridae]

 Score = 49.3 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSH-KRILFSVCAIYIDDGSISQ 53
           +++P +KVL+AFSG  SS ALLHL++ GM+  +  KR+      ++ID+GSI Q
Sbjct: 64  VVQPGEKVLLAFSGGPSSAALLHLVKRGMEEGTQKKRLRIEPGVVFIDEGSIIQ 117

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|332373848|gb|AEE62065.1| unknown [Dendroctonus ponderosae]

 Score = 49.3 bits (116), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 34/49 (69%)

Query: 1   MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
           ++ P+D+VL+A    H +M+LLHLL+ G+ L++ K++ F    +Y++D 
Sbjct: 69  LIHPKDRVLIACETGHPTMSLLHLLRSGLDLNTQKKLRFEPVLVYVEDN 117

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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	70
UNIPROTKB|Q28ES8	516	ctu2 "Cytoplasmic tRNA 2-thiol	0.9	0.122	0.365	3.8e-05
ZFIN|ZDB-GENE-040801-79	501	ctu2 "cytosolic thiouridylase	0.657	0.091	0.434	0.0002
UNIPROTKB|Q08B12	512	ctu2-a "Cytoplasmic tRNA 2-thi	0.914	0.125	0.312	0.00035
UNIPROTKB|Q32NV1	512	ctu2-b "Cytoplasmic tRNA 2-thi	0.914	0.125	0.312	0.00035

UNIPROTKB|Q28ES8 ctu2 "Cytoplasmic tRNA 2-thiolation protein 2" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 107 (42.7 bits), Expect = 3.8e-05, P = 3.8e-05
 Identities = 23/63 (36%), Positives = 37/63 (58%)

Query:     4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNF 63
             P +KVL+AFSG  SS A++  +QEGM   + K++ F    ++ID+G+   +S  +   N 
Sbjct:    68 PGEKVLLAFSGGPSSSAMVQQVQEGMSRDAPKKLRFVPGILFIDEGTTCGMSHEERQQNM 127

Query:    64 GSV 66
               V
Sbjct:   128 SEV 130

GO:0000049 "tRNA binding" evidence=ISS

GO:0002098 "tRNA wobble uridine modification" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0034227 "tRNA thio-modification" evidence=ISS

ZFIN|ZDB-GENE-040801-79 ctu2 "cytosolic thiouridylase subunit 2 homolog (S. pombe)" [Danio rerio (taxid:7955)]

 Score = 100 (40.3 bits), Expect = 0.00020, P = 0.00020
 Identities = 20/46 (43%), Positives = 30/46 (65%)

Query:     4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
             PQ+KVL+A SG  +S  +L  +QEG+   + K++ F    +YIDDG
Sbjct:    70 PQEKVLLAVSGGAASCTMLSQVQEGLSRDAPKKLRFMPGIVYIDDG 115

GO:0000049 "tRNA binding" evidence=ISS

GO:0034227 "tRNA thio-modification" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0002098 "tRNA wobble uridine modification" evidence=ISS

GO:0008033 "tRNA processing" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q08B12 ctu2-a "Cytoplasmic tRNA 2-thiolation protein 2 A" [Xenopus laevis (taxid:8355)]

 Score = 98 (39.6 bits), Expect = 0.00035, P = 0.00035
 Identities = 20/64 (31%), Positives = 37/64 (57%)

Query:     4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNF 63
             P +KVL+A+SG  SS A++  +QEG+   + K++ F    ++ID+G+   +S  +     
Sbjct:    68 PGEKVLLAYSGGPSSSAMVRQVQEGLSRDAPKKLRFVPGILFIDEGTACGMSWEERQQIL 127

Query:    64 GSVC 67
               +C
Sbjct:   128 SEIC 131

GO:0000049 "tRNA binding" evidence=ISS

GO:0002098 "tRNA wobble uridine modification" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0034227 "tRNA thio-modification" evidence=ISS

UNIPROTKB|Q32NV1 ctu2-b "Cytoplasmic tRNA 2-thiolation protein 2 B" [Xenopus laevis (taxid:8355)]

 Score = 98 (39.6 bits), Expect = 0.00035, P = 0.00035
 Identities = 20/64 (31%), Positives = 37/64 (57%)

Query:     4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNF 63
             P +KVL+A+SG  SS A++  +QEG+   + K++ F    ++ID+G+   +S  +     
Sbjct:    68 PGEKVLLAYSGGPSSSAMVRQVQEGLSRDAPKKLRFVPGILFIDEGTACGMSWEERQQIL 127

Query:    64 GSVC 67
               +C
Sbjct:   128 SEIC 131


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.322   0.132   0.383    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       70        70   0.00091  102 3  11 22  0.42    28
                                                     29  0.41    29


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  461 (49 KB)
  Total size of DFA:  81 KB (2064 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  8.10u 0.19s 8.29t   Elapsed:  00:00:00
  Total cpu time:  8.10u 0.19s 8.29t   Elapsed:  00:00:00
  Start:  Thu Aug 15 14:23:06 2013   End:  Thu Aug 15 14:23:06 2013

GO:0000049 "tRNA binding" evidence=ISS

GO:0002098 "tRNA wobble uridine modification" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0034227 "tRNA thio-modification" evidence=ISS

---

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 EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	70
TIGR02432	189	TIGR02432, lysidine_TilS_N, tRNA(Ile)-lysidine syn	1e-05
COG0037	298	COG0037, MesJ, tRNA(Ile)-lysidine synthase MesJ [C	2e-05
cd01992	185	cd01992, PP-ATPase, N-terminal domain of predicted	2e-05
pfam01171	182	pfam01171, ATP_bind_3, PP-loop family	3e-04
PRK10696	258	PRK10696, PRK10696, tRNA 2-thiocytidine biosynthes	4e-04
cd01993	185	cd01993, Alpha_ANH_like_II, This is a subfamily of	5e-04
PRK10660	436	PRK10660, tilS, tRNA(Ile)-lysidine synthetase; Pro	0.002

>gnl|CDD|233864 TIGR02432, lysidine_TilS_N, tRNA(Ile)-lysidine synthetase, N-terminal domain

 Score = 40.3 bits (95), Expect = 1e-05
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 5/41 (12%)

Query: 7  KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
          ++LVA SG   SMALLHLL     L    ++   + A ++D
Sbjct: 1  RILVAVSGGVDSMALLHLL-----LKLQPKLKIRLIAAHVD 36

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) [Protein synthesis, tRNA and rRNA base modification]. Length = 189

>gnl|CDD|223115 COG0037, MesJ, tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]

 Score = 39.8 bits (93), Expect = 2e-05
 Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 7/44 (15%)

Query: 6  DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
           K+LVA SG   S+ALLHLL+E             V A+++D G
Sbjct: 22 YKILVAVSGGKDSLALLHLLKE-------LGRRIEVEAVHVDHG 58

Length = 298

>gnl|CDD|238950 cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]

 Score = 39.5 bits (93), Expect = 2e-05
 Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 5/41 (12%)

Query: 7  KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
          K+LVA SG   SMALLHLL E        R+   + A+++D
Sbjct: 1  KILVAVSGGPDSMALLHLLSE-----LKPRLGLRLVAVHVD 36

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. Length = 185

>gnl|CDD|216343 pfam01171, ATP_bind_3, PP-loop family

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 5/43 (11%)

Query: 7  KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
          K+LVA SG   SMALL+LL          +    + A ++D G
Sbjct: 1  KILVAVSGGPDSMALLYLL-----KKLKPKFGIDLTAAHVDHG 38

This family of proteins belongs to the PP-loop superfamily. Length = 182

>gnl|CDD|236737 PRK10696, PRK10696, tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional

 Score = 36.0 bits (84), Expect = 4e-04
 Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 3/49 (6%)

Query: 1  MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
          M+   D+V+V  SG   S  LL +L   + L     I F + A+ +D  
Sbjct: 25 MIEEGDRVMVCLSGGKDSYTLLDIL---LNLQKRAPINFELVAVNLDQK 70

Length = 258

>gnl|CDD|238951 cd01993, Alpha_ANH_like_II, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily

 Score = 35.7 bits (83), Expect = 5e-04
 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 3/43 (6%)

Query: 7  KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG 49
          ++LVA SG   S+ LLH+L++   L       F + A+ +D+G
Sbjct: 1  RILVALSGGKDSLVLLHVLKK---LQRRYPYGFELEALTVDEG 40

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. Length = 185

>gnl|CDD|182626 PRK10660, tilS, tRNA(Ile)-lysidine synthetase; Provisional

 Score = 34.2 bits (79), Expect = 0.002
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 13/59 (22%)

Query: 4  PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPN 62
             ++LVAFSG   S  LLHLL   +Q  +    + ++ AI++  G         L+PN
Sbjct: 14 TSRQILVAFSGGLDSTVLLHLL---VQWRTENPGV-TLRAIHVHHG---------LSPN 59

Length = 436

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	70
PRK10696	258	tRNA 2-thiocytidine biosynthesis protein TtcA; Pro	99.5
PF01171	182	ATP_bind_3: PP-loop family; InterPro: IPR011063 Th	99.46
PRK10660	436	tilS tRNA(Ile)-lysidine synthetase; Provisional	99.39
COG0037	298	MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle	99.39
TIGR02432	189	lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-t	99.2
cd01993	185	Alpha_ANH_like_II This is a subfamily of Adenine n	99.19
cd01992	185	PP-ATPase N-terminal domain of predicted ATPase of	99.07
cd01713	173	PAPS_reductase This domain is found in phosphoaden	99.04
TIGR00884	311	guaA_Cterm GMP synthase (glutamine-hydrolyzing), C	99.03
cd01712	177	ThiI ThiI is required for thiazole synthesis in th	99.01
PRK00919	307	GMP synthase subunit B; Validated	98.99
cd01997	295	GMP_synthase_C The C-terminal domain of GMP synthe	98.97
PRK14665	360	mnmA tRNA-specific 2-thiouridylase MnmA; Provision	98.95
cd01986	103	Alpha_ANH_like Adenine nucleotide alpha hydrolases	98.9
PRK05253	301	sulfate adenylyltransferase subunit 2; Provisional	98.88
TIGR00268	252	conserved hypothetical protein TIGR00268. The N-te	98.85
cd01996	154	Alpha_ANH_like_III This is a subfamily of Adenine	98.84
cd01990	202	Alpha_ANH_like_I This is a subfamily of Adenine nu	98.84
PRK02090	241	phosphoadenosine phosphosulfate reductase; Provisi	98.83
PRK00074	511	guaA GMP synthase; Reviewed	98.83
cd01995	169	ExsB ExsB is a transcription regulator related pro	98.82
PRK13820	394	argininosuccinate synthase; Provisional	98.82
COG1606	269	ATP-utilizing enzymes of the PP-loop superfamily [	98.8
PF01507	174	PAPS_reduct: Phosphoadenosine phosphosulfate reduc	98.8
PRK08349	198	hypothetical protein; Validated	98.8
PRK14664	362	tRNA-specific 2-thiouridylase MnmA; Provisional	98.79
TIGR02039	294	CysD sulfate adenylyltransferase, small subunit. I	98.74
PLN02347	536	GMP synthetase	98.72
PRK00143	346	mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed	98.64
TIGR00032	394	argG argininosuccinate synthase. argG in bacteria,	98.64
PLN00200	404	argininosuccinate synthase; Provisional	98.64
TIGR03573	343	WbuX N-acetyl sugar amidotransferase. This enzyme	98.62
TIGR00434	212	cysH phosophoadenylyl-sulfate reductase (thioredox	98.62
cd01998	349	tRNA_Me_trans tRNA methyl transferase. This family	98.62
PRK00509	399	argininosuccinate synthase; Provisional	98.61
PRK14561	194	hypothetical protein; Provisional	98.57
TIGR00342	371	thiazole biosynthesis/tRNA modification protein Th	98.57
PRK12563	312	sulfate adenylyltransferase subunit 2; Provisional	98.55
PRK13794	479	hypothetical protein; Provisional	98.52
TIGR00420	352	trmU tRNA (5-methylaminomethyl-2-thiouridylate)-me	98.52
PF06508	209	QueC: Queuosine biosynthesis protein QueC; InterPr	98.51
COG3969	407	Predicted phosphoadenosine phosphosulfate sulfotra	98.5
PRK08576	438	hypothetical protein; Provisional	98.49
cd01994	194	Alpha_ANH_like_IV This is a subfamily of Adenine n	98.48
PRK11106	231	queuosine biosynthesis protein QueC; Provisional	98.46
TIGR00364	201	exsB protein. This protein family is represented b	98.46
COG0519	315	GuaA GMP synthase, PP-ATPase domain/subunit [Nucle	98.45
PRK08557	417	hypothetical protein; Provisional	98.44
cd01999	385	Argininosuccinate_Synthase Argininosuccinate synth	98.44
PRK04527	400	argininosuccinate synthase; Provisional	98.42
TIGR02057	226	PAPS_reductase phosphoadenosine phosphosulfate red	98.39
PRK13795	636	hypothetical protein; Provisional	98.39
TIGR00552	250	nadE NAD+ synthetase. NAD+ synthetase is a nearly	98.38
PRK08384	381	thiamine biosynthesis protein ThiI; Provisional	98.38
KOG2805|consensus	377		98.36
PRK13980	265	NAD synthetase; Provisional	98.32
PRK05370	447	argininosuccinate synthase; Validated	98.31
PF03054	356	tRNA_Me_trans: tRNA methyl transferase; InterPro:	98.29
PRK01269	482	tRNA s(4)U8 sulfurtransferase; Provisional	98.29
TIGR03183	447	DNA_S_dndC putative sulfurtransferase DndC. Member	98.28
cd00553	248	NAD_synthase NAD+ synthase is a homodimer, which c	98.24
PRK01565	394	thiamine biosynthesis protein ThiI; Provisional	98.22
COG0482	356	TrmU Predicted tRNA(5-methylaminomethyl-2-thiourid	98.19
PRK06850	507	hypothetical protein; Provisional	98.17
COG0175	261	CysH 3'-phosphoadenosine 5'-phosphosulfate sulfotr	98.15
KOG2840|consensus	347		98.08
cd01984	86	AANH_like Adenine nucleotide alpha hydrolases supe	98.07
COG0137	403	ArgG Argininosuccinate synthase [Amino acid transp	98.0
COG0603	222	Predicted PP-loop superfamily ATPase [General func	97.99
PF00764	388	Arginosuc_synth: Arginosuccinate synthase; InterPr	97.98
COG2117	198	Predicted subunit of tRNA(5-methylaminomethyl-2-th	97.9
PF02540	242	NAD_synthase: NAD synthase; InterPro: IPR022310 NA	97.81
PF02568	197	ThiI: Thiamine biosynthesis protein (ThiI); InterP	97.8
PF00733	255	Asn_synthase: Asparagine synthase; InterPro: IPR00	97.73
KOG1622|consensus	552		97.72
TIGR03679	218	arCOG00187 arCOG00187 universal archaeal metal-bin	97.69
cd01991	269	Asn_Synthase_B_C The C-terminal domain of Asparagi	97.65
PRK02628	679	nadE NAD synthetase; Reviewed	97.57
PRK00876	326	nadE NAD synthetase; Reviewed	97.5
TIGR00289	222	conserved hypothetical protein TIGR00289. Homologo	97.48
PTZ00323	294	NAD+ synthase; Provisional	97.25
TIGR00290	223	MJ0570_dom MJ0570-related uncharacterized domain.	97.12
PRK13981	540	NAD synthetase; Provisional	97.1
PF01902	218	ATP_bind_4: ATP-binding region; InterPro: IPR00276	97.02
KOG1706|consensus	412		96.98
COG1365	255	Predicted ATPase (PP-loop superfamily) [General fu	96.93
TIGR00424	463	APS_reduc 5'-adenylylsulfate reductase, thioredoxi	96.67
PLN02309	457	5'-adenylylsulfate reductase	96.6
COG2102	223	Predicted ATPases of PP-loop superfamily [General	96.57
TIGR01536	467	asn_synth_AEB asparagine synthase (glutamine-hydro	96.56
KOG0573|consensus	520		96.31
KOG2594|consensus	396		96.27
PRK00768	268	nadE NAD synthetase; Reviewed	95.96
COG0171	268	NadE NAD synthase [Coenzyme metabolism]	95.9
TIGR02055	191	APS_reductase thioredoxin-dependent adenylylsulfat	95.01
PLN02549	578	asparagine synthase (glutamine-hydrolyzing)	94.21
COG0301	383	ThiI Thiamine biosynthesis ATP pyrophosphatase [Co	94.07
TIGR03108	628	eps_aminotran_1 exosortase 1 system-associated ami	93.84
TIGR03104	589	trio_amidotrans asparagine synthase family amidotr	93.84
PF00582	140	Usp: Universal stress protein family; InterPro: IP	93.73
PRK09431	554	asnB asparagine synthetase B; Provisional	93.61
PTZ00077	586	asparagine synthetase-like protein; Provisional	93.41
cd05565	99	PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of en	93.12
COG0367	542	AsnB Asparagine synthase (glutamine-hydrolyzing) [	92.64
PLN02339	700	NAD+ synthase (glutamine-hydrolysing)	92.36
cd00293	130	USP_Like Usp: Universal stress protein family. The	92.25
PRK09982	142	universal stress protein UspD; Provisional	92.0
cd01989	146	STK_N The N-terminal domain of Eukaryotic Serine T	91.82
COG0794	202	GutQ Predicted sugar phosphate isomerase involved	91.8
PF02302	90	PTS_IIB: PTS system, Lactose/Cellobiose specific I	91.44
cd01987	124	USP_OKCHK USP domain is located between the N-term	91.26
PRK08305	196	spoVFB dipicolinate synthase subunit B; Reviewed	90.98
cd01988	132	Na_H_Antiporter_C The C-terminal domain of a subfa	90.22
TIGR00853	95	pts-lac PTS system, lactose/cellobiose family IIB	89.97
PF02441	129	Flavoprotein: Flavoprotein; InterPro: IPR003382 Th	89.6
PRK15118	144	universal stress global response regulator UspA; P	89.38
PRK09590	104	celB cellobiose phosphotransferase system IIB comp	89.33
PRK07313	182	phosphopantothenoylcysteine decarboxylase; Validat	89.05
cd05564	96	PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lic	88.34
TIGR02113	177	coaC_strep phosphopantothenoylcysteine decarboxyla	88.15
TIGR00421	181	ubiX_pad polyprenyl P-hydroxybenzoate and phenylac	88.1
PRK05920	204	aromatic acid decarboxylase; Validated	86.97
KOG2316|consensus	277		86.95
PRK10490	895	sensor protein KdpD; Provisional	86.94
PRK10499	106	PTS system N,N'-diacetylchitobiose-specific transp	86.09
PRK06029	185	3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Prov	85.9
KOG3425|consensus	128		85.83
PRK10116	142	universal stress protein UspC; Provisional	85.22
TIGR00521	390	coaBC_dfp phosphopantothenoylcysteine decarboxylas	84.12
cd01523	100	RHOD_Lact_B Member of the Rhodanese Homology Domai	83.26
cd01400	219	6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfam	81.8
KOG0571|consensus	543		81.01
KOG2644|consensus	282		80.95
COG2205	890	KdpD Osmosensitive K+ channel histidine kinase [Si	80.37
PRK05579	399	bifunctional phosphopantothenoylcysteine decarboxy	80.18

>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional

Probab=99.50  E-value=6.4e-14  Score=96.90  Aligned_cols=51  Identities=29%  Similarity=0.503  Sum_probs=42.6

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCc
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVS   55 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~   55 (70)
                      |+.++++|+||+|||+||++||+++.+ +++  +...++++.++|+|+|+ ++++
T Consensus        25 li~~~~kilVa~SGG~DS~~LL~ll~~-l~~--~~~~~~~l~av~vd~g~-~~~~   75 (258)
T PRK10696         25 MIEEGDRVMVCLSGGKDSYTLLDILLN-LQK--RAPINFELVAVNLDQKQ-PGFP   75 (258)
T ss_pred             CCCCCCEEEEEecCCHHHHHHHHHHHH-HHH--hCCCCeEEEEEEecCCC-CCCC
Confidence            678999999999999999999999998 543  23456899999999997 5544

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

Probab=99.46  E-value=1.1e-13  Score=91.06  Aligned_cols=45  Identities=44%  Similarity=0.647  Sum_probs=35.3

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCccc
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKS   57 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~   57 (70)
                      ||+||+|||+||++|++++.+ ++    ++.+.++.++||||++ ++++.+
T Consensus         1 ki~va~SGG~DS~~Ll~~l~~-~~----~~~~~~~~~~~vdh~~-~~~s~~   45 (182)
T PF01171_consen    1 KILVAVSGGKDSMALLHLLKE-LR----RRNGIKLIAVHVDHGL-REESDE   45 (182)
T ss_dssp             EEEEE--SSHHHHHHHHHHHH-HH----TTTTTEEEEEEEE-ST-SCCHHH
T ss_pred             CEEEEEcCCHHHHHHHHHHHH-HH----HhcCCCeEEEEEecCC-Ccccch
Confidence            799999999999999999998 43    4678899999999998 455544

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.

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

Probab=99.39  E-value=3e-13  Score=100.02  Aligned_cols=51  Identities=31%  Similarity=0.399  Sum_probs=42.3

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCccc
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKS   57 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~   57 (70)
                      +.++++|+||+|||+||++||+++.+ +++   ...++++.++|||||++ +++++
T Consensus        12 l~~~~~ilvavSGG~DS~~Ll~~l~~-~~~---~~~~~~l~a~hvnhglr-~~s~~   62 (436)
T PRK10660         12 LLTSRQILVAFSGGLDSTVLLHLLVQ-WRT---ENPGVTLRAIHVHHGLS-PNADS   62 (436)
T ss_pred             cCCCCeEEEEecCCHHHHHHHHHHHH-HHH---hcCCCeEEEEEEeCCCC-cchHH
Confidence            56789999999999999999999987 431   34589999999999984 55543

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

Probab=99.39  E-value=7.9e-13  Score=91.37  Aligned_cols=43  Identities=47%  Similarity=0.672  Sum_probs=36.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCc
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVS   55 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~   55 (70)
                      +++|+||+|||+||++||++|.+ +.    ++  +++.++|||||+ .+++
T Consensus        21 ~~~ilVavSGGkDS~~ll~~L~~-l~----~~--~~~~a~~Vd~~~-~~~~   63 (298)
T COG0037          21 EYKILVAVSGGKDSLALLHLLKE-LG----RR--IEVEAVHVDHGL-RGYS   63 (298)
T ss_pred             CCeEEEEeCCChHHHHHHHHHHH-hc----cC--ceEEEEEecCCC-CCcc
Confidence            68999999999999999999998 32    12  899999999998 5555

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

Probab=99.20  E-value=1e-11  Score=81.26  Aligned_cols=40  Identities=43%  Similarity=0.612  Sum_probs=34.5

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      ||+||+|||+||+++++++.+ +.    ++.++++.++|||+|+.
T Consensus         1 ~v~va~SGG~DS~~ll~ll~~-~~----~~~~~~v~~v~vd~g~~   40 (189)
T TIGR02432         1 RILVAVSGGVDSMALLHLLLK-LQ----PKLKIRLIAAHVDHGLR   40 (189)
T ss_pred             CEEEEeCCCHHHHHHHHHHHH-HH----HHcCCCEEEEEeCCCCC
Confidence            689999999999999999998 32    24678899999999983

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).

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

Probab=99.19  E-value=3.2e-11  Score=77.87  Aligned_cols=42  Identities=33%  Similarity=0.525  Sum_probs=34.2

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      ||+|++|||+||+++++++.+...   ..+.++++.++|+|+|..
T Consensus         1 ~v~v~~SGG~DS~~ll~~l~~~~~---~~~~~~~~~~~~~d~~~~   42 (185)
T cd01993           1 RILVALSGGKDSLVLLHVLKKLQR---RYPYGFELEALTVDEGIP   42 (185)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHh---hcCCCeEEEEEEEECCCC
Confidence            689999999999999999998322   112378999999999974

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.

>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=99.07  E-value=1.2e-10  Score=75.51  Aligned_cols=39  Identities=49%  Similarity=0.652  Sum_probs=33.8

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+||+|||+||+++++++.+...     +.++++.++|+|+++
T Consensus         1 ~v~v~~SGG~DS~vl~~l~~~~~~-----~~~~~v~~v~id~~~   39 (185)
T cd01992           1 KILVAVSGGPDSMALLHLLSELKP-----RLGLRLVAVHVDHGL   39 (185)
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHH-----HcCCcEEEEEecCCC
Confidence            689999999999999999988322     347899999999997

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.

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

Probab=99.04  E-value=2.9e-10  Score=71.33  Aligned_cols=38  Identities=37%  Similarity=0.623  Sum_probs=31.6

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +|+|+||||+||++||+++.+...     +. .++.++|+|+|.
T Consensus         1 ~i~v~~SGGkDS~~ll~l~~~~~~-----~~-~~~~~v~~dtg~   38 (173)
T cd01713           1 NVVVSFSGGKDSTVLLHLALKALP-----EL-KPVPVIFLDTGY   38 (173)
T ss_pred             CeEEEecCChHHHHHHHHHHHhcc-----cc-cCceEEEeCCCC
Confidence            589999999999999999998211     11 588999999997

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

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

Probab=99.03  E-value=3.1e-10  Score=81.27  Aligned_cols=40  Identities=25%  Similarity=0.382  Sum_probs=35.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      +++|+||+|||+||+++++++.+        .+|.++.++|||+|+++
T Consensus        16 ~~kVvValSGGVDSsvla~ll~~--------~~G~~v~av~vd~G~~~   55 (311)
T TIGR00884        16 DAKVIIALSGGVDSSVAAVLAHR--------AIGDRLTCVFVDHGLLR   55 (311)
T ss_pred             CCcEEEEecCChHHHHHHHHHHH--------HhCCCEEEEEEeCCCCC
Confidence            48999999999999999999986        34679999999999854

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

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

Probab=99.01  E-value=7.3e-10  Score=72.30  Aligned_cols=36  Identities=28%  Similarity=0.278  Sum_probs=32.8

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +|+|++|||+||+++++++.+         .|+++.++|+|+++.
T Consensus         1 ~vlv~~SGG~DS~~la~ll~~---------~g~~v~av~~d~g~~   36 (177)
T cd01712           1 KALALLSGGIDSPVAAWLLMK---------RGIEVDALHFNSGPF   36 (177)
T ss_pred             CEEEEecCChhHHHHHHHHHH---------cCCeEEEEEEeCCCC
Confidence            589999999999999999986         389999999999984

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

>PRK00919 GMP synthase subunit B; Validated

Probab=98.99  E-value=8.5e-10  Score=79.15  Aligned_cols=40  Identities=23%  Similarity=0.350  Sum_probs=35.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      +++++||||||+||+++++++.+        .+|.++.++|+|+|+++
T Consensus        21 ~~kVlVa~SGGVDSsvla~la~~--------~lG~~v~aV~vD~G~~~   60 (307)
T PRK00919         21 DGKAIIALSGGVDSSVAAVLAHR--------AIGDRLTPVFVDTGLMR   60 (307)
T ss_pred             CCCEEEEecCCHHHHHHHHHHHH--------HhCCeEEEEEEECCCCC
Confidence            48999999999999999999886        35789999999999853

>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase

Probab=98.97  E-value=5.6e-10  Score=79.55  Aligned_cols=38  Identities=29%  Similarity=0.461  Sum_probs=33.5

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      ||+||+|||+||+++++++.+        ..|.++.++|+|+|+.+
T Consensus         1 kVlVa~SGGVDSsvla~ll~~--------~lG~~v~aV~vd~g~~~   38 (295)
T cd01997           1 KVILALSGGVDSTVAAVLLHK--------AIGDRLTCVFVDNGLLR   38 (295)
T ss_pred             CEEEEEcCChHHHHHHHHHHH--------HhCCcEEEEEecCCCCC
Confidence            689999999999999999987        34678999999999854

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.

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

Probab=98.95  E-value=1.8e-09  Score=78.68  Aligned_cols=41  Identities=27%  Similarity=0.305  Sum_probs=37.3

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      |+.+++||+||+|||+||+++++++.+         .|+++.++|++.+.
T Consensus         1 ~~~~~~kVlValSGGVDSsvaa~LL~~---------~G~~V~~v~~~~~~   41 (360)
T PRK14665          1 MMEKNKRVLLGMSGGTDSSVAAMLLLE---------AGYEVTGVTFRFYE   41 (360)
T ss_pred             CCCCCCEEEEEEcCCHHHHHHHHHHHH---------cCCeEEEEEEecCC
Confidence            789999999999999999999999986         47899999999753

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

Probab=98.90  E-value=2.2e-09  Score=64.90  Aligned_cols=35  Identities=40%  Similarity=0.569  Sum_probs=30.7

Q ss_pred             EEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           8 VLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         8 vlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |+|++|||+||+++++++.+         .+.++.++|+|+++.
T Consensus         1 v~v~~SGG~DS~~ll~~l~~---------~~~~~~~~~~~~~~~   35 (103)
T cd01986           1 VLVAFSGGKDSSVAAALLKK---------LGYQVIAVTVDHGIS   35 (103)
T ss_pred             CEEEEeCcHHHHHHHHHHHH---------hCCCEEEEEEcCCCc
Confidence            58999999999999999987         234899999999984

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

>PRK05253 sulfate adenylyltransferase subunit 2; Provisional

Probab=98.88  E-value=3.3e-09  Score=75.84  Aligned_cols=42  Identities=17%  Similarity=0.214  Sum_probs=34.7

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++++|+|||||||++|||++.+.+     ...++++.++|||+|.
T Consensus        26 ~f~~~vv~~SGGKDS~VLL~La~ka~-----~~~~~~~~vl~iDTG~   67 (301)
T PRK05253         26 EFENPVMLYSIGKDSSVMLHLARKAF-----YPGKLPFPLLHVDTGW   67 (301)
T ss_pred             hCCCEEEEecCCHHHHHHHHHHHHhh-----cccCCCeeEEEEeCCC
Confidence            35789999999999999999998722     2335678899999997

>TIGR00268 conserved hypothetical protein TIGR00268

Probab=98.85  E-value=2.6e-09  Score=73.85  Aligned_cols=40  Identities=30%  Similarity=0.311  Sum_probs=35.0

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +++.++++||+|||+||+++++++.+         .|.++.++|+|++.
T Consensus         9 l~~~~~vlVa~SGGvDSs~ll~la~~---------~g~~v~av~~~~~~   48 (252)
T TIGR00268         9 LKEFKKVLIAYSGGVDSSLLAAVCSD---------AGTEVLAITVVSPS   48 (252)
T ss_pred             HHhcCCEEEEecCcHHHHHHHHHHHH---------hCCCEEEEEecCCC
Confidence            35678999999999999999999986         27889999999875

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

>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily

Probab=98.84  E-value=4.5e-09  Score=66.79  Aligned_cols=37  Identities=27%  Similarity=0.374  Sum_probs=31.2

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++|++|||+||+++++++.+        ..+.++.++|+|+++.
T Consensus         3 d~~v~lSGG~DSs~ll~l~~~--------~~~~~v~~v~~~~g~~   39 (154)
T cd01996           3 DCIIGVSGGKDSSYALYLLKE--------KYGLNPLAVTVDNGFN   39 (154)
T ss_pred             CEEEECCCchhHHHHHHHHHH--------HhCCceEEEEeCCCCC
Confidence            489999999999999999976        2335788999999973

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 domain has a strongly conserved motif SGGKD at the N terminus.

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

Probab=98.84  E-value=3.7e-09  Score=69.98  Aligned_cols=36  Identities=31%  Similarity=0.243  Sum_probs=30.7

Q ss_pred             EEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           8 VLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         8 vlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |+|++|||+||+++++++.+        ..+.++.++|+|+++.
T Consensus         1 vvva~SGG~DS~~ll~ll~~--------~~~~~v~~v~vd~g~~   36 (202)
T cd01990           1 VAVAFSGGVDSTLLLKAAVD--------ALGDRVLAVTATSPLF   36 (202)
T ss_pred             CEEEccCCHHHHHHHHHHHH--------HhCCcEEEEEeCCCCC
Confidence            68999999999999999987        2234899999999973

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.

>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional

Probab=98.83  E-value=3.9e-09  Score=72.59  Aligned_cols=37  Identities=22%  Similarity=0.332  Sum_probs=32.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +++|+|++||||||+||||++.+         .+.++.++++|+|.
T Consensus        40 ~~~i~vs~SGGKDS~vlL~L~~~---------~~~~i~vvfiDTG~   76 (241)
T PRK02090         40 GGRLALVSSFGAEDAVLLHLVAQ---------VDPDIPVIFLDTGY   76 (241)
T ss_pred             CCCEEEEecCCHHHHHHHHHHHh---------cCCCCcEEEecCCC
Confidence            46799999999999999999997         35679999999997

>PRK00074 guaA GMP synthase; Reviewed

Probab=98.83  E-value=6.1e-09  Score=78.57  Aligned_cols=40  Identities=25%  Similarity=0.415  Sum_probs=35.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      .++|+||+|||+||+++++++.+        .+|.++.++|+|+|+++
T Consensus       215 ~~~vlva~SGGvDS~vll~ll~~--------~lg~~v~av~vd~g~~~  254 (511)
T PRK00074        215 DKKVILGLSGGVDSSVAAVLLHK--------AIGDQLTCVFVDHGLLR  254 (511)
T ss_pred             CCcEEEEeCCCccHHHHHHHHHH--------HhCCceEEEEEeCCCCC
Confidence            48999999999999999999987        34778999999999844

>cd01995 ExsB ExsB is a transcription regulator related protein

Probab=98.82  E-value=8.1e-09  Score=66.71  Aligned_cols=35  Identities=29%  Similarity=0.336  Sum_probs=31.3

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+|++|||+||+++++++.+         .+.++.++|+|.+.
T Consensus         1 kvlv~~SGG~DS~~~~~~~~~---------~~~~v~~~~~~~~~   35 (169)
T cd01995           1 KAVVLLSGGLDSTTCLAWAKK---------EGYEVHALSFDYGQ   35 (169)
T ss_pred             CEEEEecCcHHHHHHHHHHHH---------cCCcEEEEEEECCC
Confidence            689999999999999999986         35789999999986

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

>PRK13820 argininosuccinate synthase; Provisional

Probab=98.82  E-value=8.8e-09  Score=76.12  Aligned_cols=38  Identities=29%  Similarity=0.494  Sum_probs=34.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCc-eEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILF-SVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~-~~~~v~vd~~~   50 (70)
                      .+||+||||||+||+++++++++        .+++ ++.++|+|+|+
T Consensus         2 ~~kVvvA~SGGvDSsvll~lL~e--------~~g~~~Viav~vd~g~   40 (394)
T PRK13820          2 MKKVVLAYSGGLDTSVCVPLLKE--------KYGYDEVITVTVDVGQ   40 (394)
T ss_pred             CCeEEEEEeCcHHHHHHHHHHHH--------hcCCCEEEEEEEECCC
Confidence            57999999999999999999876        4677 99999999996

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

Probab=98.80  E-value=6e-09  Score=73.87  Aligned_cols=43  Identities=35%  Similarity=0.434  Sum_probs=37.2

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCc
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQ   53 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~   53 (70)
                      +...|++||||||+||++|+.+..+        .+|-++.++|||...++.
T Consensus        15 k~~~kv~vAfSGGvDSslLa~la~~--------~lG~~v~AvTv~sP~~p~   57 (269)
T COG1606          15 KEKKKVVVAFSGGVDSSLLAKLAKE--------ALGDNVVAVTVDSPYIPR   57 (269)
T ss_pred             hhcCeEEEEecCCccHHHHHHHHHH--------HhccceEEEEEecCCCCh
Confidence            4556999999999999999999987        568899999999887654

>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase

Probab=98.80  E-value=3.6e-09  Score=67.39  Aligned_cols=35  Identities=37%  Similarity=0.672  Sum_probs=26.2

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +++|+|||||||++||+++.+...         ++.++|+|+|.
T Consensus         1 ~i~vs~SGGKDS~v~l~l~~~~~~---------~~~vv~~dtg~   35 (174)
T PF01507_consen    1 NIVVSFSGGKDSTVMLHLAREAGR---------KVPVVFIDTGY   35 (174)
T ss_dssp             SEEEE--SSHHHHHHHHHHHHHHT---------TCEEEEEE-ST
T ss_pred             CeEEEecCCHHHHHHHHHHHHhcC---------CCcEEEEecCc
Confidence            479999999999999999998322         23699999996

PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. 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 (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.

>PRK08349 hypothetical protein; Validated

Probab=98.80  E-value=9.7e-09  Score=68.51  Aligned_cols=34  Identities=15%  Similarity=0.115  Sum_probs=30.7

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      |+++++|||+||+++++++.+         .|+++.++|+|++
T Consensus         2 ~~vvllSGG~DS~v~~~~l~~---------~g~~v~av~~d~~   35 (198)
T PRK08349          2 KAVALLSSGIDSPVAIYLMLR---------RGVEVYPVHFRQD   35 (198)
T ss_pred             cEEEEccCChhHHHHHHHHHH---------cCCeEEEEEEeCC
Confidence            789999999999999998875         4789999999985

>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional

Probab=98.79  E-value=1.3e-08  Score=74.49  Aligned_cols=40  Identities=28%  Similarity=0.337  Sum_probs=35.7

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      |+.+++||+||+|||+||++++++|++         .|+++.++|++..
T Consensus         1 ~~~~~~kVlVa~SGGvDSsv~a~lL~~---------~G~eV~av~~~~~   40 (362)
T PRK14664          1 MKESKKRVLVGMSGGIDSTATCLMLQE---------QGYEIVGVTMRVW   40 (362)
T ss_pred             CCCCCCEEEEEEeCCHHHHHHHHHHHH---------cCCcEEEEEecCc
Confidence            788999999999999999999998875         4789999999864

>TIGR02039 CysD sulfate adenylyltransferase, small subunit

Probab=98.74  E-value=1.5e-08  Score=72.52  Aligned_cols=40  Identities=20%  Similarity=0.274  Sum_probs=32.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ++.+++|||||||+||||++.+..     ...+.++.++|||+|.
T Consensus        20 ~~~vv~~SGGKDS~VlLhLa~kaf-----~~~~~p~~vl~IDTG~   59 (294)
T TIGR02039        20 ERPVMLYSIGKDSSVLLHLARKAF-----YPGPLPFPLLHVDTGW   59 (294)
T ss_pred             CCcEEEEecChHHHHHHHHHHHHh-----cccCCCeEEEEEecCC
Confidence            456889999999999999999822     2235778999999997

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.

>PLN02347 GMP synthetase

Probab=98.72  E-value=2.5e-08  Score=76.00  Aligned_cols=42  Identities=24%  Similarity=0.453  Sum_probs=36.6

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      .+.++|+||+|||+||+++++++.+        .+|.++.++++|+|+++
T Consensus       227 ~~~~~vvvalSGGVDSsvla~l~~~--------alG~~v~av~id~g~~~  268 (536)
T PLN02347        227 GPDEHVICALSGGVDSTVAATLVHK--------AIGDRLHCVFVDNGLLR  268 (536)
T ss_pred             ccCCeEEEEecCChhHHHHHHHHHH--------HhCCcEEEEEEeCCCCC
Confidence            3467899999999999999999987        35789999999999853

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

Probab=98.64  E-value=5.4e-08  Score=70.31  Aligned_cols=35  Identities=26%  Similarity=0.358  Sum_probs=31.8

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+||+|||+||++++++|.+         .|+++.++|++++.
T Consensus         2 kVlValSGGvDSsvla~lL~~---------~G~~V~~v~~~~~~   36 (346)
T PRK00143          2 RVVVGMSGGVDSSVAAALLKE---------QGYEVIGVFMKLWD   36 (346)
T ss_pred             eEEEEecCCHHHHHHHHHHHH---------cCCcEEEEEEeCCC
Confidence            899999999999999999986         47889999999875

>TIGR00032 argG argininosuccinate synthase

Probab=98.64  E-value=5.3e-08  Score=71.93  Aligned_cols=35  Identities=34%  Similarity=0.484  Sum_probs=32.1

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+||||||+||+++++++++        . |+++.++|+|+|+
T Consensus         1 kVvla~SGGlDSsvll~~l~e--------~-g~~V~av~id~Gq   35 (394)
T TIGR00032         1 KVVLAYSGGLDTSVCLKWLRE--------K-GYEVIAYTADVGQ   35 (394)
T ss_pred             CEEEEEcCCHHHHHHHHHHHH--------c-CCEEEEEEEecCC
Confidence            689999999999999999986        2 8899999999996

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.

>PLN00200 argininosuccinate synthase; Provisional

Probab=98.64  E-value=6.1e-08  Score=71.94  Aligned_cols=38  Identities=29%  Similarity=0.418  Sum_probs=34.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+||+||||||+||+++++++++        ++|.++.++|+|.|.
T Consensus         5 ~~kVvva~SGGlDSsvla~~L~e--------~~G~eViav~id~Gq   42 (404)
T PLN00200          5 LNKVVLAYSGGLDTSVILKWLRE--------NYGCEVVCFTADVGQ   42 (404)
T ss_pred             CCeEEEEEeCCHHHHHHHHHHHH--------hhCCeEEEEEEECCC
Confidence            36999999999999999999986        458899999999996

>TIGR03573 WbuX N-acetyl sugar amidotransferase

Probab=98.62  E-value=4.5e-08  Score=70.55  Aligned_cols=37  Identities=19%  Similarity=0.332  Sum_probs=32.6

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++||+|||+||+++++++.+        ++|.++.++|+|+++.
T Consensus        61 D~iV~lSGGkDSs~la~ll~~--------~~gl~~l~vt~~~~~~   97 (343)
T TIGR03573        61 DCIIGVSGGKDSTYQAHVLKK--------KLGLNPLLVTVDPGWN   97 (343)
T ss_pred             CEEEECCCCHHHHHHHHHHHH--------HhCCceEEEEECCCCC
Confidence            399999999999999998865        4678899999999984

This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an

>TIGR00434 cysH phosophoadenylyl-sulfate reductase (thioredoxin)

Probab=98.62  E-value=4.8e-08  Score=65.56  Aligned_cols=37  Identities=22%  Similarity=0.278  Sum_probs=31.2

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++++++||||||+||||++.+         ...++.++++|+|.-
T Consensus        14 ~~~~~s~SgGKDS~Vll~L~~~---------~~~~~~v~f~DTg~e   50 (212)
T TIGR00434        14 GHLVYSTSFGIQGAVLLDLVSK---------ISPDIPVIFLDTGYH   50 (212)
T ss_pred             CCEEEEecCCHHHHHHHHHHHh---------cCCCCcEEEecCCCC
Confidence            4799999999999999999987         223567889999973

This enzyme, involved in the assimilation of inorganic sulfate, is designated cysH in Bacteria and MET16 in Saccharomyces cerevisiae. Synonyms include phosphoadenosine phosphosulfate reductase, PAPS reductase, and PAPS reductase, thioredoxin-dependent. In a reaction requiring reduced thioredoxin and NADPH, it converts 3(prime)-phosphoadenylylsulfate (PAPS) to sulfite and adenosine 3(prime),5(prime) diphosphate (PAP). A related family of plant enzymes, scoring below the trusted cutoff, differs in having a thioredoxin-like C-terminal domain, not requiring thioredoxin, and in having a preference for 5(prime)-adenylylsulfate (APS) over PAPS.

>cd01998 tRNA_Me_trans tRNA methyl transferase

Probab=98.62  E-value=6.3e-08  Score=69.98  Aligned_cols=35  Identities=31%  Similarity=0.439  Sum_probs=31.4

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+||+|||+||+++++++.+         .++++.++|++++.
T Consensus         1 kVlValSGGvDSsvla~lL~~---------~g~~v~~v~i~~~~   35 (349)
T cd01998           1 KVVVAMSGGVDSSVAAALLKE---------QGYEVIGVFMKNWD   35 (349)
T ss_pred             CEEEEecCCHHHHHHHHHHHH---------cCCcEEEEEEeccc
Confidence            689999999999999999986         47899999999875

This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.

>PRK00509 argininosuccinate synthase; Provisional

Probab=98.61  E-value=7.9e-08  Score=71.24  Aligned_cols=38  Identities=29%  Similarity=0.422  Sum_probs=34.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+||+||||||+||+++++++++        ++|.++.++|+|.|.
T Consensus         2 ~~kVvva~SGGlDSsvla~~l~e--------~lG~eViavt~d~Gq   39 (399)
T PRK00509          2 KKKVVLAYSGGLDTSVIIKWLKE--------TYGCEVIAFTADVGQ   39 (399)
T ss_pred             CCeEEEEEcCCHHHHHHHHHHHH--------hhCCeEEEEEEecCC
Confidence            46999999999999999999987        458899999999996

>PRK14561 hypothetical protein; Provisional

Probab=98.57  E-value=1.1e-07  Score=63.80  Aligned_cols=34  Identities=29%  Similarity=0.363  Sum_probs=29.7

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+|++|||+||+++++++.+         . +++.++|++.++
T Consensus         2 kV~ValSGG~DSslll~~l~~---------~-~~v~a~t~~~g~   35 (194)
T PRK14561          2 KAGVLFSGGKDSSLAAILLER---------F-YDVELVTVNFGV   35 (194)
T ss_pred             EEEEEEechHHHHHHHHHHHh---------c-CCeEEEEEecCc
Confidence            799999999999999998865         2 567899999997

>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI

Probab=98.57  E-value=1.4e-07  Score=68.66  Aligned_cols=40  Identities=23%  Similarity=0.193  Sum_probs=34.8

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +...+|+++++|||.||+++++++.+         .|+++.++|+|.+.
T Consensus       169 ~g~~~kvlvllSGGiDS~vaa~ll~k---------rG~~V~av~~~~~~  208 (371)
T TIGR00342       169 VGTQGKVLALLSGGIDSPVAAFMMMK---------RGCRVVAVHFFNEP  208 (371)
T ss_pred             cCcCCeEEEEecCCchHHHHHHHHHH---------cCCeEEEEEEeCCC
Confidence            34578999999999999999999975         37899999999764

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.

>PRK12563 sulfate adenylyltransferase subunit 2; Provisional

Probab=98.55  E-value=1.1e-07  Score=68.77  Aligned_cols=41  Identities=17%  Similarity=0.190  Sum_probs=33.8

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+++++++||||||+||||++.+.+     ...+.++.++|||+|.
T Consensus        37 f~~~~v~~SgGKDS~VlLhLa~kaf-----~~~~~~~pvl~VDTG~   77 (312)
T PRK12563         37 CSKPVMLYSIGKDSVVMLHLAMKAF-----RPTRPPFPLLHVDTTW   77 (312)
T ss_pred             cCCcEEEecCChHHHHHHHHHHHhh-----cccCCCeeEEEeCCCC
Confidence            4578899999999999999999832     2335678899999997

>PRK13794 hypothetical protein; Provisional

Probab=98.52  E-value=1.4e-07  Score=70.90  Aligned_cols=39  Identities=28%  Similarity=0.368  Sum_probs=32.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++++|+||||+||+++|+++.+        .++.++.++++|+|+-
T Consensus       247 ~~~v~vs~SGGKDS~v~L~L~~~--------~~~~~~~vvfiDTG~e  285 (479)
T PRK13794        247 NKPVTVAYSGGKDSLATLLLALK--------ALGINFPVLFNDTGLE  285 (479)
T ss_pred             CCCEEEEecchHHHHHHHHHHHH--------HhCCCeEEEEEECCCC
Confidence            46899999999999999999987        1245688999999973

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

Probab=98.52  E-value=2e-07  Score=67.72  Aligned_cols=35  Identities=26%  Similarity=0.405  Sum_probs=31.1

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      .||+||+|||+||+++++++.+         .++++.++|+++.
T Consensus         1 ~kVlValSGGvDSsv~a~lL~~---------~G~~V~~v~~~~~   35 (352)
T TIGR00420         1 KKVIVGLSGGVDSSVSAYLLKQ---------QGYEVVGVFMKNW   35 (352)
T ss_pred             CeEEEEEeCCHHHHHHHHHHHH---------cCCeEEEEEEEcc
Confidence            4899999999999999999986         3789999999765

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.

>PF06508 QueC: Queuosine biosynthesis protein QueC; InterPro: IPR018317 This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome

Probab=98.51  E-value=2e-07  Score=63.47  Aligned_cols=36  Identities=31%  Similarity=0.345  Sum_probs=29.6

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |++|.+|||.||+++++++.+         .+.++.++|+|.|++
T Consensus         1 Kavvl~SGG~DSt~~l~~~~~---------~~~~v~al~~~YGq~   36 (209)
T PF06508_consen    1 KAVVLFSGGLDSTTCLYWAKK---------EGYEVYALTFDYGQR   36 (209)
T ss_dssp             EEEEE--SSHHHHHHHHHHHH---------H-SEEEEEEEESSST
T ss_pred             CEEEEeCCCHHHHHHHHHHHH---------cCCeEEEEEEECCCC
Confidence            689999999999999998876         358999999999985

In Rhizobium meliloti (Sinorhizobium 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. When expressed in Escherichia coli, it conferred aliminium tolerance []. The entry also contains the gene queC, which is responsible for the conversion of GTP to 7-cyano-7-deazaguanine (preQ0). The biosynthesis of hypermodified tRNA nucleoside queuosine only occurs in eubacteria. It occupies the wobble position for all known tRNAs that are specific for Asp, Asn, His or Tyr [].; PDB: 3BL5_B 2PG3_A.

>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]

Probab=98.50  E-value=1e-07  Score=70.35  Aligned_cols=42  Identities=29%  Similarity=0.374  Sum_probs=34.5

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCc-eEEEEEEeC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILF-SVCAIYIDD   48 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~-~~~~v~vd~   48 (70)
                      ++.-++|.|+|||||||.+|||++.++.+     +.+. ++.|+|+|-
T Consensus        24 f~~f~~VcVSFSGGKDS~lmLhL~~~~ar-----~~~~~~i~VlfiD~   66 (407)
T COG3969          24 FNTFPRVCVSFSGGKDSGLMLHLVAEVAR-----ENGRDKISVLFIDW   66 (407)
T ss_pred             HhcCCeEEEEecCCCchhHHHHHHHHHHH-----HhCCCceEEEEEcc
Confidence            34568999999999999999999999544     3343 699999993

>PRK08576 hypothetical protein; Provisional

Probab=98.49  E-value=1.7e-07  Score=70.21  Aligned_cols=37  Identities=35%  Similarity=0.476  Sum_probs=31.1

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .+++|+||||+||+++|+++.+.        .+ ++.++|+|+|..
T Consensus       235 ~rVvVafSGGKDStvLL~La~k~--------~~-~V~aV~iDTG~e  271 (438)
T PRK08576        235 WTVIVPWSGGKDSTAALLLAKKA--------FG-DVTAVYVDTGYE  271 (438)
T ss_pred             CCEEEEEcChHHHHHHHHHHHHh--------CC-CCEEEEeCCCCC
Confidence            48999999999999999999871        12 489999999973

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

Probab=98.48  E-value=2.7e-07  Score=62.14  Aligned_cols=35  Identities=26%  Similarity=0.100  Sum_probs=30.3

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      |++++|||||||+++++++.+         .|+++.++++..+.
T Consensus         1 kv~v~~SGGkDS~~al~~a~~---------~G~~v~~l~~~~~~   35 (194)
T cd01994           1 KVVALISGGKDSCYALYRALE---------EGHEVVALLNLTPE   35 (194)
T ss_pred             CEEEEecCCHHHHHHHHHHHH---------cCCEEEEEEEEecC
Confidence            689999999999999999886         47899998888654

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.

>PRK11106 queuosine biosynthesis protein QueC; Provisional

Probab=98.46  E-value=4.3e-07  Score=62.97  Aligned_cols=37  Identities=24%  Similarity=0.313  Sum_probs=31.9

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +|++|+||||.||++++.++.+        . +.++.++++|.|.+
T Consensus         2 ~kvvVl~SGG~DSt~~l~~a~~--------~-~~~v~alt~dygq~   38 (231)
T PRK11106          2 KRAVVVFSGGQDSTTCLIQALQ--------Q-YDEVHCVTFDYGQR   38 (231)
T ss_pred             CcEEEEeeCcHHHHHHHHHHHh--------c-CCeEEEEEEEeCCC
Confidence            5899999999999999988875        2 35899999999974

>TIGR00364 exsB protein

Probab=98.46  E-value=2.9e-07  Score=61.25  Aligned_cols=34  Identities=29%  Similarity=0.418  Sum_probs=29.7

Q ss_pred             EEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           8 VLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         8 vlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ++|++|||+||+++++++.+         .+.++.++|+|++.
T Consensus         1 ~vv~lSGG~DSs~~~~~~~~---------~g~~v~~~~~~~~~   34 (201)
T TIGR00364         1 AVVVLSGGQDSTTCLAIAKD---------EGYEVHAITFDYGQ   34 (201)
T ss_pred             CEEEeccHHHHHHHHHHHHH---------cCCcEEEEEEECCC
Confidence            47999999999999998876         35789999999886

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.

>COG0519 GuaA GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]

Probab=98.45  E-value=1.7e-07  Score=67.45  Aligned_cols=41  Identities=24%  Similarity=0.381  Sum_probs=36.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCc
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQ   53 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~   53 (70)
                      ..|+++|+|||+||+++.-++.+        ..|-++.+++||||+++.
T Consensus        21 ~~kvi~alSGGVDSsv~a~L~~~--------AiGd~l~cvfVD~GLlR~   61 (315)
T COG0519          21 DGKVILALSGGVDSSVAAVLAHR--------AIGDQLTCVFVDHGLLRK   61 (315)
T ss_pred             CceEEEEecCCCcHHHHHHHHHH--------HhhcceEEEEecCCcccC
Confidence            57999999999999999988886        578899999999999653

>PRK08557 hypothetical protein; Provisional

Probab=98.44  E-value=2.5e-07  Score=68.81  Aligned_cols=38  Identities=26%  Similarity=0.343  Sum_probs=31.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +..++++||||+||+++++++.+         .+.++.++|+|+|+.
T Consensus       181 ~~~i~vsfSGGKDS~vlL~L~~~---------~~~~i~vvfvDTG~e  218 (417)
T PRK08557        181 GYAINASFSGGKDSSVSTLLAKE---------VIPDLEVIFIDTGLE  218 (417)
T ss_pred             CcEEEEEcCCcHHHHHHHHHHHH---------hCCCCEEEEEECCCC
Confidence            45799999999999999999886         234678899999974

>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase

Probab=98.44  E-value=3.4e-07  Score=67.52  Aligned_cols=35  Identities=31%  Similarity=0.488  Sum_probs=31.3

Q ss_pred             EEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           8 VLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         8 vlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      |+||||||.||+++++++++        ..+.++.++|+|.|.
T Consensus         1 Vvva~SGGlDSsvll~~l~e--------~~~~eV~av~~d~Gq   35 (385)
T cd01999           1 VVLAYSGGLDTSVILKWLKE--------KGGYEVIAVTADVGQ   35 (385)
T ss_pred             CEEEecCCHHHHHHHHHHHH--------hCCCeEEEEEEECCC
Confidence            68999999999999999987        356799999999996

The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity

>PRK04527 argininosuccinate synthase; Provisional

Probab=98.42  E-value=4.8e-07  Score=67.22  Aligned_cols=38  Identities=26%  Similarity=0.507  Sum_probs=33.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++|+||||||.||++++.++++         .|.++.++|+|.|..
T Consensus         2 ~~kVvVA~SGGvDSSvla~~l~e---------~G~~Viavt~d~gq~   39 (400)
T PRK04527          2 SKDIVLAFSGGLDTSFCIPYLQE---------RGYAVHTVFADTGGV   39 (400)
T ss_pred             CCcEEEEEcCChHHHHHHHHHHH---------cCCcEEEEEEEeCCC
Confidence            46899999999999999999886         378999999999973

>TIGR02057 PAPS_reductase phosphoadenosine phosphosulfate reductase, thioredoxin dependent

Probab=98.39  E-value=4e-07  Score=62.58  Aligned_cols=39  Identities=18%  Similarity=0.160  Sum_probs=32.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .+++++++|||+||+||||++.+ +.       +.++.++++|+|..
T Consensus        25 ~~~~~~s~S~Gkds~VlL~l~~~-~~-------~~~i~vv~vDTg~~   63 (226)
T TIGR02057        25 PHGLVQTSAFGIQALVTLHLLSS-IS-------EPMIPVIFIDTLYH   63 (226)
T ss_pred             CCCEEEEecCCHHHHHHHHHHHH-hh-------CCCCCEEEEeCCCC
Confidence            46799999999999999999997 21       24688999999974

Requiring thioredoxin as an electron donor, phosphoadenosine phosphosulfate reductase catalyzes the reduction of 3'-phosphoadenylylsulfate (PAPS) to sulfite and phospho-adenosine-phosphate (PAP). Found in enterobacteria, cyanobacteria, and yeast, PAPS reductase is related to a group of plant (TIGR00424) and bacterial (TIGR02055) enzymes preferring 5'-adenylylsulfate (APS) over PAPS as a substrate for reduction to sulfite.

>PRK13795 hypothetical protein; Provisional

Probab=98.39  E-value=4.4e-07  Score=70.14  Aligned_cols=38  Identities=32%  Similarity=0.414  Sum_probs=31.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++|+|+||||+||+++|+++.+.         ..++.++++|+|+.
T Consensus       243 ~~~v~Va~SGGKDS~vll~L~~~a---------~~~~~vvfiDTg~e  280 (636)
T PRK13795        243 NLPVSVSFSGGKDSLVVLDLAREA---------LKDFKAFFNNTGLE  280 (636)
T ss_pred             CCCEEEEecCcHHHHHHHHHHHHh---------CCCcEEEEEeCCCC
Confidence            468999999999999999999971         22478999999973

>TIGR00552 nadE NAD+ synthetase

Probab=98.38  E-value=5.5e-07  Score=62.11  Aligned_cols=39  Identities=18%  Similarity=0.158  Sum_probs=32.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++|+||+|||+||+++++++.+        ..+.++.+++++++.
T Consensus        21 ~~~~V~vglSGGiDSsvla~l~~~--------~~~~~~~~~~~~~~~   59 (250)
T TIGR00552        21 GAKGVVLGLSGGIDSAVVAALCVE--------ALGEQNHALLLPHSV   59 (250)
T ss_pred             CCCCEEEECCCcHHHHHHHHHHHH--------hhCCceEEEEECCcc
Confidence            467999999999999999998876        235588899998874

NAD+ synthetase is a nearly ubiquitous enzyme for the final step in the biosynthesis of the essensial cofactor NAD. The member of this family from Bacillus subtilis is a strictly NH(3)-dependent NAD(+) synthetase of 272 amino acids. Proteins consisting only of the domain modeled here may be named as NH3-dependent NAD+ synthetase. Amidotransferase activity may reside in a separate protein, or not be present. Some other members of the family, such as from Mycobacterium tuberculosis, are considerably longer, contain an apparent amidotransferase domain, and show glutamine-dependent as well as NH(3)-dependent activity.

>PRK08384 thiamine biosynthesis protein ThiI; Provisional

Probab=98.38  E-value=7.8e-07  Score=65.54  Aligned_cols=37  Identities=27%  Similarity=0.235  Sum_probs=33.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      -..|+++++|||.||.++++++.+         .|+++.++|+|++
T Consensus       179 s~gkvlvllSGGiDSpVAa~ll~k---------rG~~V~~v~f~~g  215 (381)
T PRK08384        179 TQGKVVALLSGGIDSPVAAFLMMK---------RGVEVIPVHIYMG  215 (381)
T ss_pred             CCCcEEEEEeCChHHHHHHHHHHH---------cCCeEEEEEEEeC
Confidence            457999999999999999999986         4899999999977

>KOG2805|consensus

Probab=98.36  E-value=1.1e-06  Score=64.43  Aligned_cols=52  Identities=33%  Similarity=0.540  Sum_probs=41.5

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCcccccCccccccCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPY   69 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~~~~~~~~~~c~~   69 (70)
                      |-...++|+||+|||+||.+.+++|+.         .|+++..+|+-...       ++ .++++.||+
T Consensus         1 ~p~~~~~VvvamSgGVDSsVaa~Ll~~---------~g~~v~gv~M~nWd-------~~-de~~s~cp~   52 (377)
T KOG2805|consen    1 MPEKPDRVVVAMSGGVDSSVAARLLAA---------RGYNVTGVFMKNWD-------SL-DEFGSQCPA   52 (377)
T ss_pred             CCcccceEEEEecCCchHHHHHHHHHh---------cCCCeeEEeeeccc-------cc-cccccCCCc
Confidence            345678999999999999999999986         58999999887552       22 456778876

>PRK13980 NAD synthetase; Provisional

Probab=98.32  E-value=9e-07  Score=61.63  Aligned_cols=39  Identities=18%  Similarity=0.183  Sum_probs=32.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .++|+|++|||.||+++++++.+.+       .+.++.+++++++.
T Consensus        30 ~~~vvv~lSGGiDSsv~a~l~~~~~-------~~~~v~av~~~~~~   68 (265)
T PRK13980         30 AKGVVLGLSGGIDSAVVAYLAVKAL-------GKENVLALLMPSSV   68 (265)
T ss_pred             CCcEEEECCCCHHHHHHHHHHHHHh-------CccceEEEEeeCCC
Confidence            3789999999999999999998711       13689999999886

>PRK05370 argininosuccinate synthase; Validated

Probab=98.31  E-value=1.7e-06  Score=65.20  Aligned_cols=39  Identities=23%  Similarity=0.212  Sum_probs=35.7

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++||++|||||.|+++++..|++        + +++++++++|.|.
T Consensus         9 ~~~~KVvLAYSGGLDTSv~l~wL~e--------~-~~eVia~~aDvGQ   47 (447)
T PRK05370          9 PVGQRVGIAFSGGLDTSAALLWMRQ--------K-GAVPYAYTANLGQ   47 (447)
T ss_pred             CCCCEEEEEecCCchHHHHHHHHHh--------c-CCeEEEEEEECCC
Confidence            4789999999999999999998887        3 8999999999995

>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34

Probab=98.29  E-value=1.5e-06  Score=63.69  Aligned_cols=36  Identities=33%  Similarity=0.383  Sum_probs=28.7

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .||+||+|||+||++.+.+|++         .|+++..+|+...-
T Consensus         1 ~kV~vamSGGVDSsvaA~LLk~---------~G~~V~Gv~m~~~~   36 (356)
T PF03054_consen    1 KKVLVAMSGGVDSSVAAALLKE---------QGYDVIGVTMRNWD   36 (356)
T ss_dssp             -EEEEE--SSHHHHHHHHHHHH---------CT-EEEEEEEE-SS
T ss_pred             CeEEEEccCCHHHHHHHHHHHh---------hcccceEEEEEEec
Confidence            4899999999999999999997         58999999999775

; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.

>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional

Probab=98.29  E-value=1.6e-06  Score=64.95  Aligned_cols=38  Identities=24%  Similarity=0.191  Sum_probs=33.9

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      -.+|+++.+|||.||+++++++.+         .|+++.++|+|.|.
T Consensus       176 ~~gk~lvllSGGiDS~va~~~~~k---------rG~~v~~l~f~~g~  213 (482)
T PRK01269        176 TQEDVLSLISGGFDSGVASYMLMR---------RGSRVHYCFFNLGG  213 (482)
T ss_pred             ccCeEEEEEcCCchHHHHHHHHHH---------cCCEEEEEEEecCC
Confidence            357999999999999999999875         37899999999886

>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC

Probab=98.28  E-value=1.6e-06  Score=65.24  Aligned_cols=45  Identities=20%  Similarity=0.211  Sum_probs=33.1

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhc-ccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSH-KRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~-~~~~~~~~~v~vd~~~   50 (70)
                      +..++|+|||||||+++|+++.+.+.. +. ....-.+.+++.|++.
T Consensus        13 ~~p~vV~fSGGKDSta~L~Lv~~Al~~-lp~e~~~k~v~VI~~DTgv   58 (447)
T TIGR03183        13 DIPWVVGYSGGKDSTAVLQLIWNALAA-LPAEQRTKKIHVISTDTLV   58 (447)
T ss_pred             CCceEEEeCCCHHHHHHHHHHHHHHHh-ccccccCcceEEEECcCCC
Confidence            445799999999999999999984432 11 1112367889999996

Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.

>cd00553 NAD_synthase NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD)

Probab=98.24  E-value=1.5e-06  Score=59.73  Aligned_cols=39  Identities=18%  Similarity=0.176  Sum_probs=32.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~   50 (70)
                      ..++|+|++|||.||++++.++.+        ..+ .++.+++++.+.
T Consensus        22 ~~~~vvv~lSGGiDSs~~a~la~~--------~~~~~~v~~~~~~~~~   61 (248)
T cd00553          22 GFKGVVLGLSGGIDSALVAALAVR--------ALGRENVLALFMPSRY   61 (248)
T ss_pred             CCCCEEEeCCCcHHHHHHHHHHHH--------HhCcccEEEEECCCCC
Confidence            357899999999999999999987        223 688999999875

The conversion of NaAD to NAD+ occurs via an NAD-adenylate intermediate and requires ATP and Mg2+. The intemediate is subsequently cleaved into NAD+ and AMP. In many prokaryotes, such as E. coli , NAD synthetase consists of a single domain and is strictly ammonia dependent. In contrast, eukaryotes and other prokaryotes have an additional N-terminal amidohydrolase domain that prefer glutamine, Interestingly, NAD+ synthases in these prokaryotes, can also utilize ammonia as an amide source .

>PRK01565 thiamine biosynthesis protein ThiI; Provisional

Probab=98.22  E-value=3e-06  Score=62.18  Aligned_cols=37  Identities=19%  Similarity=0.098  Sum_probs=32.3

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      -.++++++++|||.||+++++++.+         .|+++.++|++.
T Consensus       174 g~~gkvvvllSGGiDS~vaa~l~~k---------~G~~v~av~~~~  210 (394)
T PRK01565        174 GTSGKALLLLSGGIDSPVAGYLAMK---------RGVEIEAVHFHS  210 (394)
T ss_pred             CCCCCEEEEECCChhHHHHHHHHHH---------CCCEEEEEEEeC
Confidence            3568999999999999999999875         378999999964

>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]

Probab=98.19  E-value=3.5e-06  Score=61.94  Aligned_cols=38  Identities=29%  Similarity=0.405  Sum_probs=34.0

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ...||+||+|||+||++.+++|++         .|.++..+|+..+.
T Consensus         2 ~~~kV~v~mSGGVDSSVaA~lLk~---------QGyeViGl~m~~~~   39 (356)
T COG0482           2 KKKKVLVGMSGGVDSSVAAYLLKE---------QGYEVIGLFMKNWD   39 (356)
T ss_pred             CCcEEEEEccCCHHHHHHHHHHHH---------cCCeEEEEEEEeec
Confidence            457999999999999999999997         48999999998665

>PRK06850 hypothetical protein; Provisional

Probab=98.17  E-value=2.9e-06  Score=64.66  Aligned_cols=46  Identities=20%  Similarity=0.211  Sum_probs=33.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ...++|+|||||||+++|+++.+-+.+--.....-++.+++.|+++
T Consensus        34 ~~P~vV~fSGGKDStavL~Lv~~Al~~lp~e~r~k~v~Vi~~DTgv   79 (507)
T PRK06850         34 NRPWVIGYSGGKDSTAVLQLVWNALAGLPPEKRTKPVYVISSDTLV   79 (507)
T ss_pred             CCCeEEeCCCCchHHHHHHHHHHHHHhcchhccCCcEEEEECCCCC
Confidence            4458999999999999999998844320011112368899999996

>COG0175 CysH 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]

Probab=98.15  E-value=3.2e-06  Score=59.20  Aligned_cols=37  Identities=35%  Similarity=0.573  Sum_probs=30.9

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +.+++++|||+||+|+|+++.+.         ..++.++|+|+|.-
T Consensus        40 ~~~~~~~S~Gkds~V~l~L~~k~---------~~~~~vif~DTg~~   76 (261)
T COG0175          40 NPVVVSFSGGKDSTVLLHLAAKA---------FPDFPVIFLDTGYH   76 (261)
T ss_pred             CCeEEEecCchhHHHHHHHHHHh---------cCCCcEEEEeCCCc
Confidence            45899999999999999999982         22389999999974

>KOG2840|consensus

Probab=98.08  E-value=4.6e-06  Score=61.02  Aligned_cols=54  Identities=17%  Similarity=0.273  Sum_probs=46.5

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCcccc
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSK   58 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~~   58 (70)
                      ++..+++|.++-|||+||+++.+++.. |.+  ++.+|.++.++-+|+|+ .+|.++.
T Consensus        47 l~~rge~v~igasGgkdstvlA~v~~~-Ln~--r~~~g~~l~Lls~degi-~gyrd~s  100 (347)
T KOG2840|consen   47 LFARGERVAIGASGGKDSTVLAYVLDA-LNE--RHDYGLRLFLLSIDEGI-RGYRDDS  100 (347)
T ss_pred             ccCCCCccccccccchhHHHHHHHHHH-hhh--hcCCCceeeeeeccccc-cceeccH
Confidence            467899999999999999999999998 664  55689999999999996 7777653

>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=98.07  E-value=5.4e-06  Score=48.01  Aligned_cols=34  Identities=35%  Similarity=0.409  Sum_probs=28.0

Q ss_pred             EEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           8 VLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         8 vlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      |++++|||+||+++++++.+ .+     ..+.++.++|+|
T Consensus         1 ilv~~sgg~dS~~~l~~~~~-~~-----~~~~~~~~~~~~   34 (86)
T cd01984           1 ILVALSGGLDSSVLLHLAKR-LK-----SGGPEVVALVVV   34 (86)
T ss_pred             CEEEeeCCHHHHHHHHHHHH-HH-----hcCCCEEEEEeH
Confidence            58999999999999999987 21     346788888887

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

>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]

Probab=98.00  E-value=1.6e-05  Score=59.20  Aligned_cols=39  Identities=28%  Similarity=0.344  Sum_probs=35.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..+||++|||||.|.++.+.+|++        +++.++.++++|.|.
T Consensus         3 ~~kkvvLAYSGGLDTSv~i~wL~e--------~~~~eVia~tadvGQ   41 (403)
T COG0137           3 KVKKVVLAYSGGLDTSVAIKWLKE--------KGGAEVIAVTADVGQ   41 (403)
T ss_pred             CCcEEEEEecCCccHHHHHHHHHH--------hcCceEEEEEEeCCC
Confidence            468999999999999999998887        778999999999996

>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]

Probab=97.99  E-value=2e-05  Score=54.88  Aligned_cols=39  Identities=26%  Similarity=0.275  Sum_probs=33.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      ..|.+|-+|||.||+++++++.+         -+.++.++++|.|.+.
T Consensus         2 ~~kavvl~SGG~DStt~l~~a~~---------~~~ev~alsfdYGQrh   40 (222)
T COG0603           2 MKKAVVLLSGGLDSTTCLAWAKK---------EGYEVHALTFDYGQRH   40 (222)
T ss_pred             CceEEEEccCChhHHHHHHHHHh---------cCCEEEEEEeeCCCCc
Confidence            35788999999999999998886         3589999999999854

>PF00764 Arginosuc_synth: Arginosuccinate synthase; InterPro: IPR001518 Argininosuccinate synthase (6

Probab=97.98  E-value=1.4e-05  Score=59.27  Aligned_cols=34  Identities=29%  Similarity=0.435  Sum_probs=29.2

Q ss_pred             EEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           9 LVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         9 lva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ++|||||.||++++.+|++        +.+.+++++++|.|.
T Consensus         1 VLAySGGLDTS~~l~~L~e--------~~~~~Via~~aDlGq   34 (388)
T PF00764_consen    1 VLAYSGGLDTSVILKWLKE--------EGGYEVIAVTADLGQ   34 (388)
T ss_dssp             EEE--SSHHHHHHHHHHHH--------TTTEEEEEEEEESSS
T ss_pred             CeeeCCChHHHHHHHHHHh--------hcCceEEEEEEECCC
Confidence            5899999999999999987        567999999999996

3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate [, ]. In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process; PDB: 1K97_A 1KP2_A 1K92_A 1KP3_A 2NZ2_A 1VL2_A 1J1Z_D 1KOR_C 1J20_D 1KH2_C ....

>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]

Probab=97.90  E-value=2e-05  Score=53.52  Aligned_cols=37  Identities=24%  Similarity=0.374  Sum_probs=31.7

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      ++-+-|||||||+..+.+|.+         +|+++.+|+|+-|+..
T Consensus         2 ~v~vLfSGGKDSSLaA~iL~k---------lgyev~LVTvnFGv~d   38 (198)
T COG2117           2 DVYVLFSGGKDSSLAALILDK---------LGYEVELVTVNFGVLD   38 (198)
T ss_pred             ceEEEecCCCchhHHHHHHHH---------hCCCcEEEEEEecccc
Confidence            356789999999999888774         8999999999999854

>PF02540 NAD_synthase: NAD synthase; InterPro: IPR022310 NAD+ synthase (6

Probab=97.81  E-value=2.7e-05  Score=54.09  Aligned_cols=39  Identities=23%  Similarity=0.236  Sum_probs=31.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .++++|++|||.||++++.+..+-+       .+-++.+++++...
T Consensus        18 ~~~vVvglSGGiDSav~A~La~~Al-------g~~~v~~v~mp~~~   56 (242)
T PF02540_consen   18 AKGVVVGLSGGIDSAVVAALAVKAL-------GPDNVLAVIMPSGF   56 (242)
T ss_dssp             TSEEEEEETSSHHHHHHHHHHHHHH-------GGGEEEEEEEESST
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh-------hhcccccccccccc
Confidence            4789999999999999999988722       12578999999665

3.5.1 from EC) catalyzes the last step in the biosynthesis of nicotinamide adenine dinucleotide and is induced by stress factors such as heat shock and glucose limitation. The three-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its free form and in complex with ATP shows that the enzyme consists of a tight homodimer with alpha/beta subunit topology []. Catalyzes the synthesis of GMP from XMP. The protein is a homodimer, but in the archaea it is a heterodimer composed of a glutamine amidotransferase subunit (A) and a GMP-binding subunit (B). This entry contains the GMP-binding subunit (B). ; PDB: 2VXO_A 3UOW_B 3N05_A 2DPL_B 3A4I_A 3SEQ_D 3SZG_A 3SYT_A 3SDB_A 3SEZ_C ....

>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell

Probab=97.80  E-value=6.8e-05  Score=51.11  Aligned_cols=36  Identities=28%  Similarity=0.230  Sum_probs=28.8

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..|+++.+|||.||.+.++++.+         .|.++.++|++..
T Consensus         3 ~gk~l~LlSGGiDSpVAa~lm~k---------rG~~V~~l~f~~~   38 (197)
T PF02568_consen    3 QGKALALLSGGIDSPVAAWLMMK---------RGCEVIALHFDSP   38 (197)
T ss_dssp             T-EEEEE-SSCCHHHHHHHHHHC---------BT-EEEEEEEE-T
T ss_pred             CceEEEEecCCccHHHHHHHHHH---------CCCEEEEEEEECC
Confidence            46899999999999999999884         5999999999943

ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.

>PF00733 Asn_synthase: Asparagine synthase; InterPro: IPR001962 This domain is always found associated with (IPR000583 from INTERPRO)

Probab=97.73  E-value=0.00013  Score=48.29  Aligned_cols=40  Identities=18%  Similarity=0.101  Sum_probs=32.2

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +...+|.+.+|||.||++++.++.+        ..+.++.+++++.+-
T Consensus        15 ~~~~~i~~~LSGGlDSs~i~~~~~~--------~~~~~~~~~t~~~~~   54 (255)
T PF00733_consen   15 RSDKPIGILLSGGLDSSAIAALAAR--------QGGPPIKTFTIGFED   54 (255)
T ss_dssp             GCTSEEEEE--SSHHHHHHHHHHHH--------TCCSEEEEEEEECSS
T ss_pred             hcCCCEEEECCCChhHHHHHHHHHH--------hhCCceeEEEEEcCC
Confidence            4678999999999999999999986        467888999988664

Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B (6.3.5.4 from EC) catalyzes the assembly of asparagine from aspartate, Mg(2+)ATP, and glutamine. The three-dimensional architecture of the N-terminal domain of asparagine synthetase B is similar to that observed for glutamine phosphoribosylpyrophosphate amidotransferase while the molecular motif of the C-domain is reminiscent to that observed for GMP synthetase [].; GO: 0004066 asparagine synthase (glutamine-hydrolyzing) activity, 0006529 asparagine biosynthetic process; PDB: 1JGT_A 1M1Z_B 1MB9_B 1MBZ_B 1MC1_A 1Q15_D 1Q19_C 1CT9_C 3K32_F.

>KOG1622|consensus

Probab=97.72  E-value=5.1e-05  Score=57.89  Aligned_cols=40  Identities=38%  Similarity=0.384  Sum_probs=34.8

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~~~   52 (70)
                      ..+|++++|||+||+++..++++        ..+ -++.++|+|.|+++
T Consensus       230 ~~~Vl~~vSGgvdStV~a~Ll~~--------alg~~R~~ai~vdNG~mr  270 (552)
T KOG1622|consen  230 DYKVLVAVSGGVDSTVCAALLRR--------ALGPDRVHAIHVDNGFMR  270 (552)
T ss_pred             ccceEEEecCCchHHHHHHHHHH--------hhCCCceEEEEecccchh
Confidence            47899999999999999999987        244 68999999999964

>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein

Probab=97.69  E-value=6.3e-05  Score=51.33  Aligned_cols=31  Identities=23%  Similarity=0.054  Sum_probs=24.5

Q ss_pred             EEEecCchhHHHHHHHHHHhhhhhhcccCCceEE-EEEEeC
Q psy3866           9 LVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVC-AIYIDD   48 (70)
Q Consensus         9 lva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~-~v~vd~   48 (70)
                      +++||||+||+++++++.+         .|.++. ++|++.
T Consensus         1 ~vl~SGGkDS~~al~~a~~---------~G~~v~~l~~~~~   32 (218)
T TIGR03679         1 AALYSGGKDSNYALYKALE---------EGHEVRCLITVVP   32 (218)
T ss_pred             CeeecCcHHHHHHHHHHHH---------cCCEEEEEEEecc
Confidence            3689999999999998886         367875 567763

This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.

>cd01991 Asn_Synthase_B_C The C-terminal domain of Asparagine Synthase B

Probab=97.65  E-value=8.7e-05  Score=50.34  Aligned_cols=40  Identities=25%  Similarity=0.164  Sum_probs=29.9

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ....+|.+++|||.||++++.++.+ .       .+.++.+++++.+.
T Consensus        13 ~~~~~v~~~LSGGlDSs~va~~~~~-~-------~~~~~~~~~~~~~~   52 (269)
T cd01991          13 RSDVPVGVLLSGGLDSSLVAALAAR-L-------LPEPVKTFSIGFGF   52 (269)
T ss_pred             ccCCceEEeecccHHHHHHHHHHHH-h-------hCCCCceEEEeeCC
Confidence            4577899999999999999999886 1       12235667776553

This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the assembly of asparagine from aspartate, Mg(2+)ATP, and glutamine. The three-dimensional architecture of the N-terminal domain of asparagine synthetase B is similar to that observed for glutamine phosphoribosylpyrophosphate amidotransferase while the molecular motif of the C-domain is reminiscent to that observed for GMP synthetase .

>PRK02628 nadE NAD synthetase; Reviewed

Probab=97.57  E-value=9.7e-05  Score=57.57  Aligned_cols=40  Identities=25%  Similarity=0.315  Sum_probs=31.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC---ceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL---FSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~---~~~~~v~vd~~   49 (70)
                      ..++|+|++|||+||++++.++.+-++     +++   .++.++++ .+
T Consensus       360 ~~~~vvvglSGGiDSal~l~l~~~a~~-----~lg~~~~~v~~v~m-p~  402 (679)
T PRK02628        360 GLKKVVIGISGGLDSTHALLVAAKAMD-----RLGLPRKNILAYTM-PG  402 (679)
T ss_pred             CCCeEEEECCCCHHHHHHHHHHHHHHH-----hhCCCcceEEEEEC-CC
Confidence            368999999999999998888887322     234   78888888 55

>PRK00876 nadE NAD synthetase; Reviewed

Probab=97.50  E-value=0.00017  Score=52.35  Aligned_cols=38  Identities=16%  Similarity=0.177  Sum_probs=30.2

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~   50 (70)
                      .++|+|++|||.||++++.++.+        ..+ .++.+++++.+.
T Consensus        33 ~~~VvVgLSGGIDSSvvaaLa~~--------a~g~~~v~av~~~~~~   71 (326)
T PRK00876         33 RRGVVLGLSGGIDSSVTAALCVR--------ALGKERVYGLLMPERD   71 (326)
T ss_pred             CCCEEEEccCCHHHHHHHHHHHH--------hhCCCcEEEEEecCCC
Confidence            35899999999999999998876        123 468888888664

>TIGR00289 conserved hypothetical protein TIGR00289

Probab=97.48  E-value=0.00023  Score=49.27  Aligned_cols=21  Identities=38%  Similarity=0.411  Sum_probs=19.1

Q ss_pred             eEEEEecCchhHHHHHHHHHH
Q psy3866           7 KVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      |+++.|||||||+..++.+.+
T Consensus         2 kv~vl~SGGKDS~lAl~~~~~   22 (222)
T TIGR00289         2 KVAVLYSGGKDSILALYKALE   22 (222)
T ss_pred             eEEEEecCcHHHHHHHHHHHH
Confidence            688999999999999998876

Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.

>PTZ00323 NAD+ synthase; Provisional

Probab=97.25  E-value=0.00029  Score=50.48  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhh
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGM   29 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l   29 (70)
                      .++++||+|||.||++++.+..+.+
T Consensus        46 ~~~vVVglSGGVDSav~aaLa~~al   70 (294)
T PTZ00323         46 LKGCVTSVSGGIDSAVVLALCARAM   70 (294)
T ss_pred             CCcEEEECCCCHHHHHHHHHHHHHh
Confidence            5789999999999999999998733

>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain

Probab=97.12  E-value=0.00073  Score=46.85  Aligned_cols=21  Identities=29%  Similarity=0.205  Sum_probs=18.8

Q ss_pred             eEEEEecCchhHHHHHHHHHH
Q psy3866           7 KVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      |+++.|||||||+..++.+.+
T Consensus         2 k~~~l~SGGKDS~~al~~a~~   22 (223)
T TIGR00290         2 KVAALISGGKDSCLALYHALK   22 (223)
T ss_pred             cEEEEecCcHHHHHHHHHHHH
Confidence            578899999999999998886

Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.

>PRK13981 NAD synthetase; Provisional

Probab=97.10  E-value=0.0008  Score=50.84  Aligned_cols=38  Identities=16%  Similarity=0.135  Sum_probs=30.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~   50 (70)
                      .++++|++|||.||++++.++.+        .+| .++.++++....
T Consensus       280 ~~~~vvglSGGiDSa~~a~la~~--------a~g~~~v~~~~~p~~~  318 (540)
T PRK13981        280 FPGVVLGLSGGIDSALVAAIAVD--------ALGAERVRAVMMPSRY  318 (540)
T ss_pred             CCeEEEECCCCHHHHHHHHHHHH--------HhCcCcEEEEECCCCC
Confidence            47899999999999999998876        234 467888887543

>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal

Probab=97.02  E-value=0.0026  Score=43.84  Aligned_cols=21  Identities=29%  Similarity=0.276  Sum_probs=16.8

Q ss_pred             eEEEEecCchhHHHHHHHHHH
Q psy3866           7 KVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      |+++-|||||||+..++.+.+
T Consensus         2 k~v~l~SGGKDS~lAl~~a~~   22 (218)
T PF01902_consen    2 KVVALWSGGKDSCLALYRALR   22 (218)
T ss_dssp             EEEEE--SSHHHHHHHHHHHH
T ss_pred             cEEEEEcCcHHHHHHHHHHHH
Confidence            678889999999999988876

The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.

>KOG1706|consensus

Probab=96.98  E-value=0.0007  Score=50.02  Aligned_cols=42  Identities=29%  Similarity=0.433  Sum_probs=36.2

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |.....+|++|+|||.|.++.|.+|.+         .|.++++..-|-|..
T Consensus         1 ~~~~~~~vVLAySGgLDTscil~WLke---------qGyeViay~AnvGQ~   42 (412)
T KOG1706|consen    1 MMSSKKSVVLAYSGGLDTSCILAWLKE---------QGYEVIAYLANVGQK   42 (412)
T ss_pred             CCCCCceEEEEecCCcCchhhhHHHHh---------cCceEEEeeccccch
Confidence            345668999999999999999988876         699999999998873

>COG1365 Predicted ATPase (PP-loop superfamily) [General function prediction only]

Probab=96.93  E-value=0.00093  Score=47.09  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHH
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      +.+++||+|||+||++-.-+++.
T Consensus        60 ~~kiaVA~SGG~DSsas~iilR~   82 (255)
T COG1365          60 KPKIAVAYSGGVDSSASAIILRW   82 (255)
T ss_pred             CceEEEEecCCcchHHHHHHHHh
Confidence            36999999999999998877774

>TIGR00424 APS_reduc 5'-adenylylsulfate reductase, thioredoxin-independent

Probab=96.67  E-value=0.0016  Score=49.31  Aligned_cols=39  Identities=21%  Similarity=0.338  Sum_probs=30.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCc
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQ   53 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~   53 (70)
                      ++++++++|||.|+ +|+|++.+         .+.++.++++|+|...+
T Consensus       115 ~~~iavasSG~eds-vLlhl~~~---------~~~~ipV~flDTG~lFp  153 (463)
T TIGR00424       115 GNDIAIAFSGAEDV-ALIEYAHL---------TGRPFRVFSLDTGRLNP  153 (463)
T ss_pred             CCCEEEEeccHHHH-HHHHHHHH---------hCCCCcEEEecCCCCCH
Confidence            45799999988886 57888876         34568999999997543

This enzyme, involved in the assimilation of inorganic sulfate, is closely related to the thioredoxin-dependent PAPS reductase of Bacteria (CysH) and Saccharomyces cerevisiae. However, it has its own C-terminal thioredoxin-like domain and is not thioredoxin-dependent. Also, it has a substrate preference for 5'-adenylylsulfate (APS) over 3'-phosphoadenylylsulfate (PAPS) so the pathway does not require an APS kinase (CysC) to convert APS to PAPS. Arabidopsis thaliana appears to have three isozymes, all able to complement E. coli CysH mutants (even in backgrounds lacking thioredoxin or APS kinase) but likely localized to different compartments in Arabidopsis.

>PLN02309 5'-adenylylsulfate reductase

Probab=96.60  E-value=0.002  Score=48.70  Aligned_cols=39  Identities=21%  Similarity=0.338  Sum_probs=29.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCc
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQ   53 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~   53 (70)
                      ++++++++|||.|+ +|+|++.+         .+.++.++++|+|...+
T Consensus       110 ~~~ia~~~SG~ed~-vll~l~~~---------~~~~ipV~flDTG~lfp  148 (457)
T PLN02309        110 GNDIAIAFSGAEDV-ALIEYAHL---------TGRPFRVFSLDTGRLNP  148 (457)
T ss_pred             CCCEEEEecchHHH-HHHHHHHH---------hCCCCcEEEecCCCCCH
Confidence            46799999977776 67788775         34567899999997544

>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]

Probab=96.57  E-value=0.005  Score=43.05  Aligned_cols=32  Identities=28%  Similarity=0.318  Sum_probs=24.4

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEE-EEEEe
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVC-AIYID   47 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~-~v~vd   47 (70)
                      |++.-+||||||...++...+         .|+++. ++++-
T Consensus         2 k~~aL~SGGKDS~~Al~~a~~---------~G~eV~~Ll~~~   34 (223)
T COG2102           2 KVIALYSGGKDSFYALYLALE---------EGHEVVYLLTVK   34 (223)
T ss_pred             cEEEEEecCcHHHHHHHHHHH---------cCCeeEEEEEEe
Confidence            567789999999999988875         477765 34444

>TIGR01536 asn_synth_AEB asparagine synthase (glutamine-hydrolyzing)

Probab=96.56  E-value=0.0047  Score=45.79  Aligned_cols=39  Identities=18%  Similarity=0.023  Sum_probs=28.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ...+|.+.+|||.||++++.++.+ ..    .  ..++.+++++.+
T Consensus       252 ~~~~vg~~LSGGlDSs~iaa~a~~-~~----~--~~~~~~~t~~~~  290 (467)
T TIGR01536       252 ADVPVGVLLSGGLDSSLVAAIARR-EA----P--RGPVHTFSIGFE  290 (467)
T ss_pred             cCCceEEEecCChhHHHHHHHHHH-hc----C--CCCceEEEEecC
Confidence            456899999999999999998886 11    1  135667777654

This model describes the glutamine-hydrolysing asparagine synthase. A poorly conserved C-terminal extension was removed from the model. Bacterial members of the family tend to have a long, poorly conserved insert lacking from archaeal and eukaryotic sequences. Multiple isozymes have been demonstrated, such as in Bacillus subtilis. Long-branch members of the phylogenetic tree (which typically were also second or third candidate members from their genomes) were removed from the seed alignment and score below trusted cutoff.

>KOG0573|consensus

Probab=96.31  E-value=0.0079  Score=46.12  Aligned_cols=38  Identities=21%  Similarity=0.106  Sum_probs=28.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ..+|.|-||||.|||+++.++.+.+.      .+.++.++.|--
T Consensus       250 ~s~VcVlfSGGvDs~vvA~l~h~~vp------~ne~IdLINVaF  287 (520)
T KOG0573|consen  250 ESNVCVLFSGGVDSTVVAVLAHYVVP------ENEPIDLINVAF  287 (520)
T ss_pred             cCcEEEEecCCchHHHHHHHHHhhcC------CCCceeEEEeec
Confidence            47899999999999999999998443      234455555443

>KOG2594|consensus

Probab=96.27  E-value=0.0064  Score=45.34  Aligned_cols=46  Identities=30%  Similarity=0.511  Sum_probs=31.8

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhccc--CCceEEEEEE
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKR--ILFSVCAIYI   46 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~--~~~~~~~v~v   46 (70)
                      |..+.+.++++|+||..|++||+++.-.+++...++  .++.+.++.+
T Consensus        58 ~~~~sk~vLlv~~G~ssSlvlLd~vh~~l~q~k~~~~~~~~tv~v~~~  105 (396)
T KOG2594|consen   58 MGTPSKNVLLVFDGGSSSLVLLDFVHLALKQLKNKRLRRDFTVLVLVV  105 (396)
T ss_pred             cCCcccceEEEecCCcchHhHHHHHHHHHHHhhhhhcCcCCceEEEEE
Confidence            345678999999999999999999995354433233  3455544433

>PRK00768 nadE NAD synthetase; Reviewed

Probab=95.96  E-value=0.0089  Score=42.54  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=21.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHh
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEG   28 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~   28 (70)
                      ....++|++|||.||.+.+.+..+-
T Consensus        37 g~~g~VlGlSGGIDSav~a~L~~~A   61 (268)
T PRK00768         37 GLKSLVLGISGGQDSTLAGRLAQLA   61 (268)
T ss_pred             CCCeEEEECCCCHHHHHHHHHHHHH
Confidence            3578999999999999999888763

>COG0171 NadE NAD synthase [Coenzyme metabolism]

Probab=95.90  E-value=0.009  Score=42.55  Aligned_cols=40  Identities=23%  Similarity=0.233  Sum_probs=28.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccC--CceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRI--LFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~--~~~~~~v~vd~~   49 (70)
                      .+++++++|||.||++.+.+..+-+.     +.  ...+.++....+
T Consensus        25 ~k~~VlGiSGGiDSa~~~~La~~A~~-----~~~~~~~~~av~mP~~   66 (268)
T COG0171          25 FKGVVLGLSGGIDSALVLALAVRALG-----KGDSKENVLAVRLPYG   66 (268)
T ss_pred             CCCeEEEcccChHHHHHHHHHHHHhc-----cccchhheeeEECCCC
Confidence            47899999999999999999987332     21  123666666655

>TIGR02055 APS_reductase thioredoxin-dependent adenylylsulfate APS reductase

Probab=95.01  E-value=0.025  Score=37.74  Aligned_cols=28  Identities=18%  Similarity=0.395  Sum_probs=23.2

Q ss_pred             chhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866          15 SHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus        15 G~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |.||+||||++.+         ...++.++++|+|..
T Consensus         2 ~~~s~Vll~L~~~---------~~~~~~vifvDTg~~   29 (191)
T TIGR02055         2 GAEDVVLVDLAAK---------VRPDVKVFFLDTGRL   29 (191)
T ss_pred             ChHHHHHHHHHHh---------cCCCCcEEEecCCCC
Confidence            7899999999997         234578999999974

This model describes recently identified adenosine 5'-phosphosulfate (APS) reductase activity found in sulfate-assimilatory prokaryotes, thus separating it from the traditionally described phosphoadenosine 5'-phosphosulfate (PAPS) reductases found in bacteria and fungi. Homologous to PAPS reductase in enterobacteria, cyanobacteria, and yeast, APS reductase here clusters with, and demonstrates greater homology to plant APS reductase. Additionally, the presence of two conserved C-terminal motifs (CCXXRKXXPL & SXGCXXCT) distinguishes APS substrate specificity and serves as a FeS cluster.

>PLN02549 asparagine synthase (glutamine-hydrolyzing)

Probab=94.21  E-value=0.046  Score=42.37  Aligned_cols=25  Identities=16%  Similarity=0.113  Sum_probs=21.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhh
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGM   29 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l   29 (70)
                      ..+|.+.+|||.||++++.++.+.+
T Consensus       225 dvpvgv~LSGGLDSSlIaala~~~~  249 (578)
T PLN02549        225 DVPFGVLLSGGLDSSLVASIAARHL  249 (578)
T ss_pred             CCceeEeecCCccHHHHHHHHHHhh
Confidence            4578999999999999999998733

>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]

Probab=94.07  E-value=0.12  Score=38.56  Aligned_cols=35  Identities=26%  Similarity=0.264  Sum_probs=30.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ..|+++-+|||-||=|..+++-+         -|.++..+|.+.
T Consensus       175 ~Gk~l~LlSGGIDSPVA~~l~mk---------RG~~v~~v~f~~  209 (383)
T COG0301         175 QGKVLLLLSGGIDSPVAAWLMMK---------RGVEVIPVHFGN  209 (383)
T ss_pred             CCcEEEEEeCCCChHHHHHHHHh---------cCCEEEEEEEcC
Confidence            56899999999999999998875         489999999963

>TIGR03108 eps_aminotran_1 exosortase 1 system-associated amidotransferase 1

Probab=93.84  E-value=0.081  Score=40.73  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=20.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ....|.+.+|||.||++++.++.+
T Consensus       257 ~d~~vg~~LSGGlDSs~Iaa~~~~  280 (628)
T TIGR03108       257 ADVPLGAFLSGGVDSSAVVALMAG  280 (628)
T ss_pred             cCCcceEeecCCccHHHHHHHHHH
Confidence            345788999999999999988875

The predicted protein-sorting transpeptidase that we call exosortase (see TIGR02602) has distinct subclasses that associated with different types of exopolysaccharide production loci. This model represents a distinct clade among a set of amidotransferases largely annotated (not necessarily accurately) as glutatime-hydrolyzing asparagine synthases. Members of this clade are essentially restricted to the characteristic exopolysaccharide (EPS) regions that contain the exosortase 1 genome (xrtA), in genomes that also have numbers of PEP-CTERM domain (TIGR02595) proteins.

>TIGR03104 trio_amidotrans asparagine synthase family amidotransferase

Probab=93.84  E-value=0.1  Score=40.31  Aligned_cols=24  Identities=33%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ...+|.+.+|||.||++++.++.+
T Consensus       259 sd~pvg~~LSGGlDSs~Iaa~~~~  282 (589)
T TIGR03104       259 ADVPVGVLLSGGLDSSLIVGLLAE  282 (589)
T ss_pred             cCCceeEEecCCccHHHHHHHHHH
Confidence            456799999999999999988876

Members of this protein family are closely related to several isoforms of asparagine synthetase (glutamine amidotransferase) and typically have been given this name in genome annotation to date. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, including alpha, beta, and gamma Proteobacteria, Mycobacterium, and Prosthecochloris, which is a member of the Chlorobi. The other two members of the cassette are a probable protease and a member of the GNAT family of acetyltransferases.

>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=93.73  E-value=0.2  Score=29.11  Aligned_cols=40  Identities=25%  Similarity=0.291  Sum_probs=33.5

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ++|+|+++|+..|--++....+ +.    +..+.++.++|+.+..
T Consensus         3 ~~Ilv~~d~~~~~~~al~~a~~-la----~~~~~~i~~l~v~~~~   42 (140)
T PF00582_consen    3 KRILVAIDGSEESRRALRFALE-LA----KRSGAEITLLHVIPPP   42 (140)
T ss_dssp             SEEEEEESSSHHHHHHHHHHHH-HH----HHHTCEEEEEEEEESC
T ss_pred             CEEEEEECCCHHHHHHHHHHHH-HH----HhhCCeEEEEEeeccc
Confidence            6899999999999999888887 33    3578899999998764

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 ....

>PRK09431 asnB asparagine synthetase B; Provisional

Probab=93.61  E-value=0.072  Score=40.99  Aligned_cols=24  Identities=17%  Similarity=0.115  Sum_probs=21.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ...+|.+.+|||.||++++.++.+
T Consensus       226 sdvpvGv~LSGGLDSSlIaala~~  249 (554)
T PRK09431        226 SDVPYGVLLSGGLDSSLISAIAKK  249 (554)
T ss_pred             CCCceEEEcCCCccHHHHHHHHHH
Confidence            356789999999999999999987

>PTZ00077 asparagine synthetase-like protein; Provisional

Probab=93.41  E-value=0.084  Score=40.96  Aligned_cols=24  Identities=13%  Similarity=0.088  Sum_probs=21.2

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ...+|.+.+|||.||++++.++.+
T Consensus       236 sdvpvGv~LSGGLDSSlIaala~~  259 (586)
T PTZ00077        236 GDVPFGLFLSGGLDSSIVAAIVAK  259 (586)
T ss_pred             CCCceEEEecCCchHHHHHHHHHH
Confidence            346789999999999999999987

>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=93.12  E-value=0.27  Score=30.15  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhh
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQ   30 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~   30 (70)
                      +|+++++||..|+.+..-+++.++
T Consensus         2 ~Ill~C~~GaSSs~la~km~~~a~   25 (99)
T cd05565           2 NVLVLCAGGGTSGLLANALNKGAK   25 (99)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998655

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.

>COG0367 AsnB Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]

Probab=92.64  E-value=0.13  Score=39.49  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=21.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ....|.+.+|||.||++++.++.+
T Consensus       229 advpvg~~lSGGlDSS~Iaa~a~~  252 (542)
T COG0367         229 ADVPVGVFLSGGLDSSLIAAIAAE  252 (542)
T ss_pred             cCCcEEEEeCCCccHHHHHHHHHH
Confidence            356789999999999999999998

>PLN02339 NAD+ synthase (glutamine-hydrolysing)

Probab=92.36  E-value=0.14  Score=40.52  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=18.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLL   25 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll   25 (70)
                      ..++++|++|||.||++.+.+.
T Consensus       347 g~~g~vlglSGGiDSa~~a~lv  368 (700)
T PLN02339        347 GASGFLLPLSGGADSSSVAAIV  368 (700)
T ss_pred             CCCeEEEEccCCHHHHHHHHHH
Confidence            3578999999999999866664

>cd00293 USP_Like Usp: Universal stress protein family

Probab=92.25  E-value=0.53  Score=27.04  Aligned_cols=39  Identities=23%  Similarity=0.327  Sum_probs=32.1

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +|+|+++++..+..++....+ +.    +..+.++.++|+....
T Consensus         1 ~ilv~i~~~~~~~~~l~~a~~-~a----~~~~~~i~~l~v~~~~   39 (130)
T cd00293           1 RILVAVDGSEESERALRWAAR-LA----RRLGAELVLLHVVDPP   39 (130)
T ss_pred             CEEEEeCCCHHHHHHHHHHHH-HH----HhcCCEEEEEEEecCC
Confidence            589999999999999988887 33    3568899999998664

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.

>PRK09982 universal stress protein UspD; Provisional

Probab=92.00  E-value=0.38  Score=29.89  Aligned_cols=40  Identities=28%  Similarity=0.318  Sum_probs=32.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      .++||+|+.|+..|.-++....+ +.    +..+.++.++||-..
T Consensus         3 ~k~ILvavD~S~~s~~al~~A~~-lA----~~~~a~l~llhV~~~   42 (142)
T PRK09982          3 YKHIGVAISGNEEDALLVNKALE-LA----RHNDAHLTLIHIDDG   42 (142)
T ss_pred             ceEEEEEecCCcchHHHHHHHHH-HH----HHhCCeEEEEEEccC
Confidence            37899999999999888887776 33    457889999999754

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

Probab=91.82  E-value=0.43  Score=29.19  Aligned_cols=38  Identities=13%  Similarity=0.034  Sum_probs=31.5

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +||||+.|...|..++....+ +    .+..+.++.++|+...
T Consensus         1 ~ILVavD~S~~s~~al~~a~~-~----a~~~~~~l~ll~v~~~   38 (146)
T cd01989           1 SVAVAVDKDKKSKNALKWALD-N----LATKGQTIVLVHVHPP   38 (146)
T ss_pred             CEEEEecCccccHHHHHHHHH-h----ccCCCCcEEEEEeccC
Confidence            589999999999999988887 3    2456889999999754

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.

>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]

Probab=91.80  E-value=0.4  Score=33.07  Aligned_cols=43  Identities=37%  Similarity=0.490  Sum_probs=34.6

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||.++| |++++||+=.+.-++.++.. +     |+.+.++.++|-+.+-
T Consensus        83 ~i~~~D-vviaiS~SGeT~el~~~~~~-a-----K~~g~~liaiT~~~~S  125 (202)
T COG0794          83 MITPGD-VVIAISGSGETKELLNLAPK-A-----KRLGAKLIAITSNPDS  125 (202)
T ss_pred             CCCCCC-EEEEEeCCCcHHHHHHHHHH-H-----HHcCCcEEEEeCCCCC
Confidence            456666 88899999888888888886 4     4689999999998663

>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes

Probab=91.44  E-value=0.98  Score=25.84  Aligned_cols=36  Identities=11%  Similarity=0.167  Sum_probs=28.5

Q ss_pred             eEEEEecCchhHHHHH-HHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           7 KVLVAFSGSHSSMALL-HLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll-~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ||++++.+|.-|+.|+ .-+++.++     +.|++....+..
T Consensus         1 kIlvvC~~Gi~TS~~~~~~i~~~~~-----~~gi~~~~~~~~   37 (90)
T PF02302_consen    1 KILVVCGSGIGTSLMVANKIKKALK-----ELGIEVEVSAGS   37 (90)
T ss_dssp             EEEEEESSSSHHHHHHHHHHHHHHH-----HTTECEEEEEEE
T ss_pred             CEEEECCChHHHHHHHHHHHHHHHH-----hccCceEEEEec
Confidence            7999999998888888 77777554     467777777776

The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....

>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=91.26  E-value=0.49  Score=28.13  Aligned_cols=39  Identities=18%  Similarity=0.385  Sum_probs=32.4

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +|+|+++|+..|--++..... +.    ++.+.++.++||..+.
T Consensus         1 ~Ilv~vd~s~~s~~al~~a~~-la----~~~~~~l~ll~v~~~~   39 (124)
T cd01987           1 RILVCISGGPNAERLIRRAAR-LA----DRLKAPWYVVYVETPR   39 (124)
T ss_pred             CEEEEECCCcchHHHHHHHHH-HH----HHhCCCEEEEEEecCc
Confidence            589999999999999888887 43    3578899999998764

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.

>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed

Probab=90.98  E-value=0.84  Score=31.19  Aligned_cols=41  Identities=15%  Similarity=0.170  Sum_probs=30.5

Q ss_pred             CCCCCCeEEEEecCchhHHH-HHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           1 MMRPQDKVLVAFSGSHSSMA-LLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~-Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      |.-.+.||++++|||.-..- ...++++ |+     +.|.++.++.=.
T Consensus         1 ~~l~~k~IllgVTGsiaa~k~a~~lir~-L~-----k~G~~V~vv~T~   42 (196)
T PRK08305          1 MSLKGKRIGFGLTGSHCTYDEVMPEIEK-LV-----DEGAEVTPIVSY   42 (196)
T ss_pred             CCCCCCEEEEEEcCHHHHHHHHHHHHHH-HH-----hCcCEEEEEECH
Confidence            33467899999999988888 5888887 54     347777766544

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

Probab=90.22  E-value=0.93  Score=26.75  Aligned_cols=38  Identities=13%  Similarity=0.225  Sum_probs=31.3

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +|+|++.|..+|.-++..... +.    +..+.++.++|+-..
T Consensus         1 ~ILv~vd~s~~~~~~l~~a~~-la----~~~~~~v~ll~v~~~   38 (132)
T cd01988           1 RILVPVANPNTARDLLELAAA-LA----RAQNGEIIPLNVIEV   38 (132)
T ss_pred             CEEEecCCchhHHHHHHHHHH-Hh----hcCCCeEEEEEEEec
Confidence            589999999999999888887 43    356789999999764

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

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

Probab=89.97  E-value=1.3  Score=26.64  Aligned_cols=38  Identities=11%  Similarity=0.098  Sum_probs=27.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ..+|++++.+|..|+.++.-+++.++     +.|+++.+-+..
T Consensus         3 ~~~ILl~C~~G~sSS~l~~k~~~~~~-----~~gi~~~v~a~~   40 (95)
T TIGR00853         3 ETNILLLCAAGMSTSLLVNKMNKAAE-----EYGVPVKIAAGS   40 (95)
T ss_pred             ccEEEEECCCchhHHHHHHHHHHHHH-----HCCCcEEEEEec
Confidence            46899999999999888877777554     356665554444

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.

>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []

Probab=89.60  E-value=0.77  Score=28.48  Aligned_cols=36  Identities=19%  Similarity=0.360  Sum_probs=27.0

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||+++++|+....-..+++++ |+     +.|.++.++.=+
T Consensus         1 k~i~l~vtGs~~~~~~~~~l~~-L~-----~~g~~v~vv~S~   36 (129)
T PF02441_consen    1 KRILLGVTGSIAAYKAPDLLRR-LK-----RAGWEVRVVLSP   36 (129)
T ss_dssp             -EEEEEE-SSGGGGGHHHHHHH-HH-----TTTSEEEEEESH
T ss_pred             CEEEEEEECHHHHHHHHHHHHH-Hh-----hCCCEEEEEECC
Confidence            4899999999999998899988 55     347887766543

This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....

>PRK15118 universal stress global response regulator UspA; Provisional

Probab=89.38  E-value=1.3  Score=27.00  Aligned_cols=40  Identities=23%  Similarity=0.180  Sum_probs=31.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      .++||+|+.|...|..++....+ +.    +..+.++.++|++..
T Consensus         3 ~~~ILvavD~S~~s~~al~~a~~-la----~~~~a~l~ll~v~~~   42 (144)
T PRK15118          3 YKHILIAVDLSPESKVLVEKAVS-MA----RPYNAKVSLIHVDVN   42 (144)
T ss_pred             ceEEEEEccCChhHHHHHHHHHH-HH----HhhCCEEEEEEEccC
Confidence            47899999999999888877776 32    356789999999643

>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed

Probab=89.33  E-value=1.3  Score=27.34  Aligned_cols=37  Identities=16%  Similarity=0.043  Sum_probs=27.3

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||++++.+|..|+.++.-+++.++     +.|+++.+-+..
T Consensus         2 kkILlvCg~G~STSlla~k~k~~~~-----e~gi~~~i~a~~   38 (104)
T PRK09590          2 KKALIICAAGMSSSMMAKKTTEYLK-----EQGKDIEVDAIT   38 (104)
T ss_pred             cEEEEECCCchHHHHHHHHHHHHHH-----HCCCceEEEEec
Confidence            4799999999999988888888554     356665554444

>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated

Probab=89.05  E-value=1.3  Score=29.62  Aligned_cols=36  Identities=19%  Similarity=0.283  Sum_probs=27.9

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||++++||+.-+.-..++++. |++     .+.++.++.=.
T Consensus         2 k~Ill~vtGsiaa~~~~~li~~-L~~-----~g~~V~vv~T~   37 (182)
T PRK07313          2 KNILLAVSGSIAAYKAADLTSQ-LTK-----RGYQVTVLMTK   37 (182)
T ss_pred             CEEEEEEeChHHHHHHHHHHHH-HHH-----CCCEEEEEECh
Confidence            6899999999999999999987 552     46777665443

>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=88.34  E-value=1.5  Score=26.28  Aligned_cols=36  Identities=14%  Similarity=0.161  Sum_probs=26.0

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ||++++.+|.-|+.++.-+++.++     +.|.++.+.+.+
T Consensus         1 kIl~~Cg~G~sTS~~~~ki~~~~~-----~~~~~~~v~~~~   36 (96)
T cd05564           1 KILLVCSAGMSTSILVKKMKKAAE-----KRGIDAEIEAVP   36 (96)
T ss_pred             CEEEEcCCCchHHHHHHHHHHHHH-----HCCCceEEEEec
Confidence            589999999998888887777554     345655555554

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

>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal

Probab=88.15  E-value=1.6  Score=29.02  Aligned_cols=36  Identities=19%  Similarity=0.397  Sum_probs=27.6

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||+|++||+.-..-..+++++ |+     +.+.++.++.=+
T Consensus         1 k~I~lgvtGs~~a~~~~~ll~~-L~-----~~g~~V~vi~T~   36 (177)
T TIGR02113         1 KKILLAVTGSIAAYKAADLTSQ-LT-----KLGYDVTVLMTQ   36 (177)
T ss_pred             CEEEEEEcCHHHHHHHHHHHHH-HH-----HCCCEEEEEECh
Confidence            4799999999988888888887 55     246777766544

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.

>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases

Probab=88.10  E-value=1.3  Score=29.58  Aligned_cols=35  Identities=20%  Similarity=0.349  Sum_probs=27.9

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ||+|++|||.-..-..+++++ |+     +.|.++.++.=+
T Consensus         1 ~illgvtGsiaa~ka~~lir~-L~-----~~g~~V~vv~T~   35 (181)
T TIGR00421         1 RIVVAMTGASGVIYGIRLLEV-LK-----EAGVEVHLVISD   35 (181)
T ss_pred             CEEEEEECHHHHHHHHHHHHH-HH-----HCCCEEEEEECc
Confidence            689999999999999999998 54     346777766555

In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.

>PRK05920 aromatic acid decarboxylase; Validated

Probab=86.97  E-value=2.3  Score=29.11  Aligned_cols=38  Identities=13%  Similarity=0.262  Sum_probs=28.9

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .+.||++++|||.-+.-...++++ |++     .|.++.++.=.
T Consensus         2 ~~krIllgITGsiaa~ka~~lvr~-L~~-----~g~~V~vi~T~   39 (204)
T PRK05920          2 KMKRIVLAITGASGAIYGVRLLEC-LLA-----ADYEVHLVISK   39 (204)
T ss_pred             CCCEEEEEEeCHHHHHHHHHHHHH-HHH-----CCCEEEEEECh
Confidence            357999999999999888888888 542     36676666544

>KOG2316|consensus

Probab=86.95  E-value=1.3  Score=31.65  Aligned_cols=29  Identities=17%  Similarity=0.213  Sum_probs=21.0

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEE
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAI   44 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v   44 (70)
                      |++--+||||||..-+.-..+         .|-+++++
T Consensus         2 rvvaLiSGGKDScynmm~cv~---------~gHeiVaL   30 (277)
T KOG2316|consen    2 RVVALISGGKDSCYNMMCCVR---------LGHEIVAL   30 (277)
T ss_pred             cEEEEEeCChHHHHHHHHHHH---------cCCeeeee
Confidence            567779999999877655553         57776654

>PRK10490 sensor protein KdpD; Provisional

Probab=86.94  E-value=1.8  Score=34.98  Aligned_cols=41  Identities=17%  Similarity=0.289  Sum_probs=33.9

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      -.++|+||+||++.|-.|+.--.+ +.    .+++.++.++||+..
T Consensus       249 ~~eriLV~v~~~~~~~~lIr~~~r-lA----~~~~a~~~~l~V~~~  289 (895)
T PRK10490        249 TRDAILLCIGHNTGSEKLVRTAAR-LA----ARLGSVWHAVYVETP  289 (895)
T ss_pred             cCCeEEEEECCCcchHHHHHHHHH-HH----HhcCCCEEEEEEecC
Confidence            467899999999999888777666 43    468899999999976

>PRK10499 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB; Provisional

Probab=86.09  E-value=3.4  Score=25.30  Aligned_cols=35  Identities=11%  Similarity=0.092  Sum_probs=24.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEE
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIY   45 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~   45 (70)
                      .||++.+++|..|..|+.-+++..     ++.+.+..+-+
T Consensus         4 kkIllvC~~G~sTSll~~km~~~~-----~~~gi~~~V~A   38 (106)
T PRK10499          4 KHIYLFCSAGMSTSLLVSKMRAQA-----EKYEVPVIIEA   38 (106)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHH-----HHCCCCEEEEE
Confidence            589999999999999996665523     24555554444

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

Probab=85.90  E-value=2.2  Score=28.79  Aligned_cols=37  Identities=16%  Similarity=0.202  Sum_probs=28.1

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||++++|||.-+.-..+++++ |++    ..|.++.++.-.
T Consensus         2 k~IllgVTGsiaa~ka~~l~~~-L~k----~~g~~V~vv~T~   38 (185)
T PRK06029          2 KRLIVGISGASGAIYGVRLLQV-LRD----VGEIETHLVISQ   38 (185)
T ss_pred             CEEEEEEECHHHHHHHHHHHHH-HHh----hcCCeEEEEECH
Confidence            4899999999999999999998 542    246676666544

>KOG3425|consensus

Probab=85.83  E-value=4.9  Score=26.05  Aligned_cols=44  Identities=18%  Similarity=0.238  Sum_probs=36.4

Q ss_pred             CCCCeEEEEecCch----------hHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           3 RPQDKVLVAFSGSH----------SSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         3 ~~~~kvlva~SGG~----------DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      ..+++|.+.|+|++          |-.+..-++.+.++     +.+-++.+||++-|-+
T Consensus        23 ~n~~~ifvlF~gskd~~tGqSWCPdCV~AEPvi~~alk-----~ap~~~~~v~v~VG~r   76 (128)
T KOG3425|consen   23 ENGKTIFVLFLGSKDDTTGQSWCPDCVAAEPVINEALK-----HAPEDVHFVHVYVGNR   76 (128)
T ss_pred             hCCceEEEEEecccCCCCCCcCCchHHHhhHHHHHHHH-----hCCCceEEEEEEecCC
Confidence            46788999999999          77888888888554     5678899999999864

>PRK10116 universal stress protein UspC; Provisional

Probab=85.22  E-value=2.5  Score=25.55  Aligned_cols=38  Identities=18%  Similarity=0.180  Sum_probs=30.2

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ..+|++++.+..+|..++....+ |.    ++.+.++.++|+-
T Consensus         3 ~~~ILv~~D~s~~s~~al~~A~~-lA----~~~~a~l~ll~v~   40 (142)
T PRK10116          3 YSNILVAVAVTPESQQLLAKAVS-IA----RPVNGKISLITLA   40 (142)
T ss_pred             CceEEEEccCCcchHHHHHHHHH-HH----HHhCCEEEEEEEc
Confidence            57899999999999888877776 43    3567888888884

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

Probab=84.12  E-value=3.2  Score=30.85  Aligned_cols=38  Identities=21%  Similarity=0.329  Sum_probs=29.2

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .+.||++++||+....-.+.++++ |+     +.|.++.++.=.
T Consensus         2 ~~k~IllgiTGSiaa~~~~~ll~~-L~-----~~g~~V~vv~T~   39 (390)
T TIGR00521         2 ENKKILLGVTGGIAAYKTVELVRE-LV-----RQGAEVKVIMTE   39 (390)
T ss_pred             CCCEEEEEEeCHHHHHHHHHHHHH-HH-----hCCCEEEEEECH
Confidence            467999999999999999999987 54     246777665433

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.

>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily

Probab=83.26  E-value=4.2  Score=23.45  Aligned_cols=37  Identities=24%  Similarity=0.257  Sum_probs=27.6

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+.++|++-+..|..|..+...|++         .|++  +.++..|+
T Consensus        59 ~~~~~ivv~C~~G~rs~~aa~~L~~---------~G~~--~~~l~GG~   95 (100)
T cd01523          59 PDDQEVTVICAKEGSSQFVAELLAE---------RGYD--VDYLAGGM   95 (100)
T ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHH---------cCce--eEEeCCcH
Confidence            4567888888888888877777764         5787  66677665

This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.

>cd01400 6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate

Probab=81.80  E-value=4.5  Score=27.34  Aligned_cols=43  Identities=19%  Similarity=0.305  Sum_probs=31.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCc-eEEEEEEeCCCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILF-SVCAIYIDDGSIS   52 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~-~~~~v~vd~~~~~   52 (70)
                      ...++.+|+|||..=..+...|.+      ..+..+ ++.+..+|+-+.+
T Consensus        21 ~~~~~~l~lsGGstp~~~y~~L~~------~~~i~w~~v~~f~~DEr~Vp   64 (219)
T cd01400          21 KRGRFSLALSGGSTPKPLYELLAA------APALDWSKVHVFLGDERCVP   64 (219)
T ss_pred             hcCeEEEEECCCccHHHHHHHhcc------ccCCCCceEEEEEeeccccC
Confidence            456899999999887777776664      113454 6788999988743

6PGL is thought to guard against the accumulation of the delta form of the lactone, which may be toxic through its reaction with endogenous cellular nucleophiles.

>KOG0571|consensus

Probab=81.01  E-value=3.2  Score=32.27  Aligned_cols=41  Identities=12%  Similarity=0.023  Sum_probs=27.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      -++-+-+|||.||+..+.++.+.+++.... .+.++....|-
T Consensus       226 ~p~GvLLSGGLDSSLvAsia~R~lk~~~~~-~~~~lhsFaIG  266 (543)
T KOG0571|consen  226 VPFGVLLSGGLDSSLVASIAARELKKAQAA-RGSKLHSFAIG  266 (543)
T ss_pred             CceeEEeeCCchHHHHHHHHHHHHHHhhhh-cCCCceEEEec
Confidence            356677899999999999988767762211 25555555553

>KOG2644|consensus

Probab=80.95  E-value=0.62  Score=33.71  Aligned_cols=45  Identities=22%  Similarity=0.372  Sum_probs=30.9

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCc---eEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILF---SVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~---~~~~v~vd~~~   50 (70)
                      ..++.+|-||+|-+++++++...+++....++.+   .+..+|++..-
T Consensus        83 E~~a~SFnggkdc~vll~ll~~~l~~~~~~~~~~p~~~i~~~~~~~~~  130 (282)
T KOG2644|consen   83 EEMALSFNGGKDCTVLLLLLMRYLRDEYAEKLDQPSTAIPAVYIDVED  130 (282)
T ss_pred             HHHHHhhCCCCChHHHHHHHHHHhcchhhhhccCCCccccceeecCCC
Confidence            4567889999999999999988676532222222   34578887553

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

Probab=80.37  E-value=3.6  Score=33.95  Aligned_cols=42  Identities=24%  Similarity=0.431  Sum_probs=35.1

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      -.++|+|++||+..|--+..-..+ +.    .+++.++.++||+.+-
T Consensus       247 ~~e~ilvcI~~~~~~e~liR~a~R-lA----~~~~a~~~av~v~~~~  288 (890)
T COG2205         247 ARERILVCISGSPGSEKLIRRAAR-LA----SRLHAKWTAVYVETPE  288 (890)
T ss_pred             ccceEEEEECCCCchHHHHHHHHH-HH----HHhCCCeEEEEEeccc
Confidence            358999999999999988877776 43    4688899999999764

>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated

Probab=80.18  E-value=4.9  Score=29.96  Aligned_cols=38  Identities=13%  Similarity=0.314  Sum_probs=29.0

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .+.||++++||+.-..-..++++. |+     +.|.++.++.=.
T Consensus         5 ~~k~IllgvTGsiaa~k~~~lv~~-L~-----~~g~~V~vv~T~   42 (399)
T PRK05579          5 AGKRIVLGVSGGIAAYKALELVRR-LR-----KAGADVRVVMTE   42 (399)
T ss_pred             CCCeEEEEEeCHHHHHHHHHHHHH-HH-----hCCCEEEEEECH
Confidence            467999999999988888888887 54     346777665533

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	70
1ni5_A	433	Putative cell cycle protein MESJ; structural genom	3e-06
3a2k_A	464	TRNA(Ile)-lysidine synthase; ligase, pseudo-knot,	5e-06
1wy5_A	317	TILS, hypothetical UPF0072 protein AQ_1887; N-type	1e-05

>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 Length = 433

 Score = 41.6 bits (98), Expect = 3e-06
 Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 1  MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
           +    ++LVAFSG   S  LLH L +       +    ++ AI++ 
Sbjct: 9  QLLTSRQILVAFSGGLDSTVLLHQLVQWRT----ENPGVALRAIHVH 51

>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA complex; 3.65A {Geobacillus kaustophilus} Length = 464

 Score = 40.8 bits (96), Expect = 5e-06
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 5/47 (10%)

Query: 1  MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
          ++     V+V  SG   S+ALLH+    + L    ++   V A ++D
Sbjct: 14 LLSEGAAVIVGVSGGPDSLALLHVF---LSLRDEWKL--QVIAAHVD 55

>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* Length = 317

 Score = 39.9 bits (94), Expect = 1e-05
 Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 4/47 (8%)

Query: 1  MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
          +   + +VL+AFSG   S+ L  +L   ++L ++  +   V   + +
Sbjct: 20 IFSGERRVLIAFSGGVDSVVLTDVL---LKLKNYFSL-KEVALAHFN 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	70
1wy5_A	317	TILS, hypothetical UPF0072 protein AQ_1887; N-type	99.37
3a2k_A	464	TRNA(Ile)-lysidine synthase; ligase, pseudo-knot,	99.36
1ni5_A	433	Putative cell cycle protein MESJ; structural genom	99.36
1sur_A	215	PAPS reductase; assimilatory sulfate reduction, 3-	99.2
3k32_A	203	Uncharacterized protein MJ0690; predicted subunit	98.99
2dpl_A	308	GMP synthetase, GMP synthase [glutamine-hydrolyzin	98.97
3bl5_A	219	Queuosine biosynthesis protein QUEC; PREQ1 biosynt	98.95
1k92_A	455	Argininosuccinate synthase, argininosuccinate SY;	98.94
2o8v_A	252	Phosphoadenosine phosphosulfate reductase; disulfi	98.92
1zun_A	325	Sulfate adenylyltransferase subunit 2; beta barrel	98.91
3tqi_A	527	GMP synthase [glutamine-hydrolyzing]; ligase; 2.84	98.87
2oq2_A	261	Phosphoadenosine phosphosulfate reductase; sulfate	98.86
2pg3_A	232	Queuosine biosynthesis protein QUEC; YP_049261.1,	98.85
2der_A	380	TRNA-specific 2-thiouridylase MNMA; protein-RNA co	98.83
1kor_A	400	Argininosuccinate synthetase; ligase, riken struct	98.83
2hma_A	376	Probable tRNA (5-methylaminomethyl-2-thiouridylat	98.82
2ywb_A	503	GMP synthase [glutamine-hydrolyzing]; GMP syntheta	98.82
2c5s_A	413	THII, probable thiamine biosynthesis protein THII;	98.8
2wsi_A	306	FAD synthetase; transferase, nucleotidyltransferas	98.73
2nz2_A	413	Argininosuccinate synthase; amino-acid biosynthesi	98.73
3uow_A	556	GMP synthetase; structural genomics consortium, SG	98.68
3p52_A	249	NH(3)-dependent NAD(+) synthetase; structural geno	98.63
2goy_A	275	Adenosine phosphosulfate reductase; iron sulfur cl	98.62
1gpm_A	525	GMP synthetase, XMP aminase; class I glutamine ami	98.62
2e18_A	257	NH(3)-dependent NAD(+) synthetase; ligase, structu	98.61
2vxo_A	697	GMP synthase [glutamine-hydrolyzing]; proto-oncoge	98.56
1vl2_A	421	Argininosuccinate synthase; TM1780, structural gen	98.55
1xng_A	268	NH(3)-dependent NAD(+) synthetase; amidotransferas	98.53
3fiu_A	249	NH(3)-dependent NAD(+) synthetase; rossman fold, a	98.33
3fwk_A	308	FMN adenylyltransferase; FAD biosynthesis, alpha/b	98.33
3rjz_A	237	N-type ATP pyrophosphatase superfamily; structural	98.13
1wxi_A	275	NH(3)-dependent NAD(+) synthetase; NADE, E.coli, l	97.92
1kqp_A	271	NAD+ synthase, NH(3)-dependent NAD(+) synthetase,	97.87
3n05_A	590	NH(3)-dependent NAD(+) synthetase; ligase, structu	97.86
1vbk_A	307	Hypothetical protein PH1313; structural genomics,	97.79
3q4g_A	279	NH(3)-dependent NAD(+) synthetase; structural geno	97.76
3dpi_A	285	NAD+ synthetase; ssgcid, decode, structural genomi	97.5
3sdb_A	680	Glutamine-dependent NAD(+) synthetase; glutamine-a	97.42
3ilv_A	634	Glutamine-dependent NAD(+) synthetase; protein str	97.12
1q15_A	503	CARA; CMPR, (2S,5S)-5-carboxymethylproline, B-LS,	96.57
1jgt_A	513	Beta-lactam synthetase; asparagine synthetase, cla	96.23
1ct9_A	553	Asparagine synthetase B; amidotransferase, substra	96.04
4f4h_A	565	Glutamine dependent NAD+ synthetase; structural ge	94.92
2dum_A	170	Hypothetical protein PH0823; conserved hypothetica	94.57
1mjh_A	162	Protein (ATP-binding domain of protein MJ0577); hy	94.5
3idf_A	138	USP-like protein; universal, stress, PSI, MCSG, st	92.82
2z08_A	137	Universal stress protein family; uncharacterized c	92.7
1jmv_A	141	USPA, universal stress protein A; chaperone; 1.85A	92.61
3nbm_A	108	PTS system, lactose-specific IIBC components; PTS_	92.58
3hgm_A	147	Universal stress protein TEAD; rossman fold, signa	92.57
3tnj_A	150	Universal stress protein (USP); structural genomic	92.2
3s3t_A	146	Nucleotide-binding protein, universal stress PROT	91.97
3zqu_A	209	Probable aromatic acid decarboxylase; lyase; HET:	91.63
1q77_A	138	Hypothetical protein AQ_178; structural genomics,	91.59
1e2b_A	106	Enzyme IIB-cellobiose; phosphotransferase system,	90.6
1tq8_A	163	Hypothetical protein RV1636; MTCY01B2.28, structur	89.81
2ejb_A	189	Probable aromatic acid decarboxylase; phenylacryli	88.86
3fg9_A	156	Protein of universal stress protein USPA family; A	88.76
3fdx_A	143	Putative filament protein / universal stress PROT;	88.09
2k0z_A	110	Uncharacterized protein HP1203; A/B domain, struct	88.07
3qjg_A	175	Epidermin biosynthesis protein EPID; structural ge	87.74
1p3y_1	194	MRSD protein; flavoprotein, FMN, rossmann fold, HF	87.38
1g63_A	181	Epidermin modifying enzyme EPID; alpha, beta prote	87.34
3dlo_A	155	Universal stress protein; unknown function, struct	87.34
3lqk_A	201	Dipicolinate synthase subunit B; flavoprotein, PSI	87.29
1qzu_A	206	Hypothetical protein MDS018; alpha-beta sandwich,	87.02
3loq_A	294	Universal stress protein; structural genomics, PSI	86.2
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	86.14
1sbz_A	197	Probable aromatic acid decarboxylase; FMN binding,	85.64
1mvl_A	209	PPC decarboxylase athal3A; flavoprotein, active si	85.64
3mcu_A	207	Dipicolinate synthase, B chain; NESG, structural g	85.43
3mt0_A	290	Uncharacterized protein PA1789; structural genomic	84.77
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	84.43
2gm3_A	175	Unknown protein; AT3G01520, putative ethylene-resp	83.81
3cis_A	309	Uncharacterized protein; alpha/beta hydrolase, ATP	82.25
3ab8_A	268	Putative uncharacterized protein TTHA0350; tandem-	82.06

>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=99.37  E-value=6e-13  Score=92.75  Aligned_cols=46  Identities=22%  Similarity=0.335  Sum_probs=40.2

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCce-EEEEEEeCCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFS-VCAIYIDDGSI   51 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~-~~~v~vd~~~~   51 (70)
                      |+.++++|+||+|||+||++|++++.+ ++    ++++++ +.++|||||++
T Consensus        20 l~~~~~~vlva~SGG~DS~~Ll~ll~~-~~----~~~g~~~v~av~vd~g~r   66 (317)
T 1wy5_A           20 IFSGERRVLIAFSGGVDSVVLTDVLLK-LK----NYFSLKEVALAHFNHMLR   66 (317)
T ss_dssp             SCSSCCEEEEECCSSHHHHHHHHHHHH-ST----TTTTCSEEEEEEEECCSS
T ss_pred             CCCCCCEEEEEecchHHHHHHHHHHHH-HH----HHcCCCEEEEEEEECCCC
Confidence            467889999999999999999999998 32    356889 99999999984

>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA complex; 3.65A {Geobacillus kaustophilus}

Probab=99.36  E-value=4e-13  Score=98.10  Aligned_cols=46  Identities=26%  Similarity=0.367  Sum_probs=40.8

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      |+.++++|+||+|||+||++||+++.+ ++    ++.++++.++|||||++
T Consensus        14 l~~~~~~vlVa~SGG~DS~~Ll~ll~~-~~----~~~~~~v~avhvdhglr   59 (464)
T 3a2k_A           14 LLSEGAAVIVGVSGGPDSLALLHVFLS-LR----DEWKLQVIAAHVDHMFR   59 (464)
T ss_dssp             SSSCSSBEEEECCSSHHHHHHHHHHHH-HH----HTTTCBCEEEEEECTTC
T ss_pred             CCCCCCEEEEEEcCcHHHHHHHHHHHH-HH----HHcCCeEEEEEEECCCC
Confidence            578899999999999999999999998 43    34689999999999984

>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=99.36  E-value=4.9e-13  Score=97.02  Aligned_cols=50  Identities=28%  Similarity=0.347  Sum_probs=41.9

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhccc-CCceEEEEEEeCCCCCcCcc
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKR-ILFSVCAIYIDDGSISQVSK   56 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~-~~~~~~~v~vd~~~~~~~~~   56 (70)
                      ++.++++|+||+|||+||++||+++.+ ++    ++ .++++.++|||||++ ++++
T Consensus         9 ~l~~~~~vlVa~SGG~DS~~Ll~ll~~-~~----~~~~g~~v~avhvdhglr-~~s~   59 (433)
T 1ni5_A            9 QLLTSRQILVAFSGGLDSTVLLHQLVQ-WR----TENPGVALRAIHVHHGLS-ANAD   59 (433)
T ss_dssp             HHTTCSEEEEECCSBHHHHHHHHHHHH-HH----TTSTTCEEEEEEECCSCC-SSHH
T ss_pred             hcCCCCEEEEEEcchHHHHHHHHHHHH-HH----HhcCCCeEEEEEEECCCC-cccH
Confidence            357899999999999999999999998 43    23 789999999999984 4443

>1sur_A PAPS reductase; assimilatory sulfate reduction, 3-phospho-adenylyl-sulfate reductase, oxidoreductase; 2.00A {Escherichia coli} SCOP: c.26.2.2

Probab=99.20  E-value=1.3e-11  Score=81.37  Aligned_cols=38  Identities=21%  Similarity=0.248  Sum_probs=33.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++|+||||||+||++||+++.+         .+.++.++|+|+|+.
T Consensus        44 ~~~v~Va~SGGkDS~vLL~ll~~---------~~~~v~~v~vd~g~~   81 (215)
T 1sur_A           44 PGEYVLSSSFGIQAAVSLHLVNQ---------IRPDIPVILTDTGYL   81 (215)
T ss_dssp             CSEEEEECCCCTTHHHHHHHHHH---------HSTTCEEEEEECSCB
T ss_pred             CCCEEEEecCCHHHHHHHHHHHH---------hCCCCeEEEeeCCCC
Confidence            47999999999999999999997         236789999999974

>3k32_A Uncharacterized protein MJ0690; predicted subunit of tRNA methyltransferase, methanocaldococcus jannaschii DSM , PSI- 2; 2.50A {Methanocaldococcus jannaschii}

Probab=98.99  E-value=5.9e-10  Score=73.46  Aligned_cols=37  Identities=30%  Similarity=0.324  Sum_probs=33.5

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +||+|++|||+||+++++++.+         .|+++.++|+|+++.
T Consensus         7 ~kv~v~~SGG~DS~~ll~ll~~---------~g~~v~~~~v~~~~~   43 (203)
T 3k32_A            7 MDVHVLFSGGKDSSLSAVILKK---------LGYNPHLITINFGVI   43 (203)
T ss_dssp             EEEEEECCCSHHHHHHHHHHHH---------TTEEEEEEEEECSSS
T ss_pred             CeEEEEEECcHHHHHHHHHHHH---------cCCCeEEEEEeCCCc
Confidence            6899999999999999999875         478999999999973

>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=98.97  E-value=5.5e-10  Score=78.04  Aligned_cols=40  Identities=23%  Similarity=0.351  Sum_probs=35.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      +++|+|++|||+||+++++++.+        .+|+++.++|+|+|+.+
T Consensus        20 ~~kvlvalSGGvDSsvla~ll~~--------~~g~~v~av~vd~g~~~   59 (308)
T 2dpl_A           20 DSKAIIALSGGVDSSTAAVLAHK--------AIGDRLHAVFVNTGFLR   59 (308)
T ss_dssp             TSCEEEECCSSHHHHHHHHHHHH--------HHGGGEEEEEEECSCCC
T ss_pred             CCCEEEEEeChHHHHHHHHHHHH--------hhCCCEEEEEEcCCCCC
Confidence            57999999999999999999987        24689999999999843

>3bl5_A Queuosine biosynthesis protein QUEC; PREQ1 biosynthesis, RNA modification, tRNA, hydrolase; 2.95A {Bacillus subtilis}

Probab=98.95  E-value=9.9e-10  Score=71.42  Aligned_cols=38  Identities=21%  Similarity=0.237  Sum_probs=33.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++|+|++|||+||+++++++.+         .+.++.++|+|++..
T Consensus         3 ~~~v~v~lSGG~DS~~ll~ll~~---------~~~~v~~~~~~~~~~   40 (219)
T 3bl5_A            3 KEKAIVVFSGGQDSTTCLLWALK---------EFEEVETVTFHYNQR   40 (219)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHH---------HCSEEEEEEEESSCT
T ss_pred             CCCEEEEccCcHHHHHHHHHHHH---------cCCceEEEEEeCCCC
Confidence            57899999999999999999986         247899999999973

>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=98.94  E-value=1.5e-09  Score=80.31  Aligned_cols=40  Identities=20%  Similarity=0.228  Sum_probs=36.8

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +.+++||+||||||+||+++++++++        . |+++.++|+|+|.
T Consensus         7 l~~~~KVvVA~SGGlDSSvll~~L~e--------~-G~eViavtvd~Gq   46 (455)
T 1k92_A            7 LPVGQRIGIAFSGGLDTSAALLWMRQ--------K-GAVPYAYTANLGQ   46 (455)
T ss_dssp             CCTTSEEEEECCSSHHHHHHHHHHHH--------T-TCEEEEEEEECCC
T ss_pred             hcCCCeEEEEEcChHHHHHHHHHHHH--------c-CCEEEEEEEEcCC
Confidence            56789999999999999999999987        3 8999999999996

>2o8v_A Phosphoadenosine phosphosulfate reductase; disulfide crosslinked complex, oxidoreductase; 3.00A {Escherichia coli}

Probab=98.92  E-value=5.4e-10  Score=75.85  Aligned_cols=38  Identities=18%  Similarity=0.235  Sum_probs=33.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++|+||+|||+||++||+++.+ +        +.++.++|+|+|+.
T Consensus        45 ~~~v~va~SGG~DS~vLL~ll~~-~--------~~~v~vv~idtg~~   82 (252)
T 2o8v_A           45 PGEYVLSSSFGIQAAVSLHLVNQ-I--------RPDIPVILTDTGYL   82 (252)
T ss_dssp             CSCEEEECCCSTTHHHHHHHHHH-H--------STTCEEEECCCSCB
T ss_pred             CCCEEEEeCCCHHHHHHHHHHHH-h--------CCCCeEEEecCCCC
Confidence            46899999999999999999997 2        25788999999974

>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=98.91  E-value=6.7e-10  Score=78.44  Aligned_cols=43  Identities=16%  Similarity=0.153  Sum_probs=35.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      ..++++|+||||+||++||+++.+..     .+.++++.++|+|+|+.
T Consensus        45 ~~~~ivVa~SGGkDS~vLL~Ll~~~~-----~~~~~~i~vv~vDtg~~   87 (325)
T 1zun_A           45 EFDNPVMLYSIGKDSAVMLHLARKAF-----FPGKLPFPVMHVDTRWK   87 (325)
T ss_dssp             HCSSEEEECCSSHHHHHHHHHHHHHH-----TTSCCSSCEEEECCSCC
T ss_pred             hCCCEEEEEcChHHHHHHHHHHHHhc-----cccCCCEEEEEEECCCC
Confidence            35689999999999999999999822     23467788999999984

>3tqi_A GMP synthase [glutamine-hydrolyzing]; ligase; 2.84A {Coxiella burnetii}

Probab=98.87  E-value=1.1e-09  Score=81.18  Aligned_cols=39  Identities=23%  Similarity=0.409  Sum_probs=35.1

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++|+||+|||+||+++++++.+        .+|.++.++|+|+|++
T Consensus       230 ~~kvlvalSGGvDSsvla~ll~~--------~~G~~v~av~vd~g~~  268 (527)
T 3tqi_A          230 KEQVIVGLSGGVDSAVTATLVHK--------AIGDQLVCVLVDTGLL  268 (527)
T ss_dssp             TSCEEEECTTTHHHHHHHHHHHH--------HHGGGEEEEEECCSCS
T ss_pred             CCeEEEEEecCcCHHHHHHHHHH--------HhCCeEEEEEeccCCC
Confidence            48999999999999999999987        2478999999999985

>2oq2_A Phosphoadenosine phosphosulfate reductase; sulfate reduction, PAPS reductase, oxidoreductase; HET: A3P; 2.10A {Saccharomyces cerevisiae}

Probab=98.86  E-value=2.1e-09  Score=73.36  Aligned_cols=41  Identities=7%  Similarity=0.178  Sum_probs=34.1

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .++++|++|||+||++||+++.+ +.    .+ +.++.++|+|+|+.
T Consensus        41 ~~~v~va~SGGkDS~vLL~ll~~-~~----~~-~~~i~vv~iDtg~~   81 (261)
T 2oq2_A           41 FPHLFQTTAFGLTGLVTIDMLSK-LS----EK-YYMPELLFIDTLHH   81 (261)
T ss_dssp             CSSEEEECCCCHHHHHHHHHHHH-HT----TT-SCCCEEEEECCSCB
T ss_pred             CCCEEEEecCCHHHHHHHHHHHH-hC----cc-CCCeeEEEecCCCC
Confidence            35899999999999999999998 32    12 46789999999984

>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=98.85  E-value=3.4e-09  Score=70.29  Aligned_cols=37  Identities=27%  Similarity=0.276  Sum_probs=32.7

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      ++++|++|||+||+++++++.+         .+.++.++|+|++.+
T Consensus         3 ~kvvv~lSGG~DS~~~l~ll~~---------~~~~v~av~~~~g~~   39 (232)
T 2pg3_A            3 KRAVVVFSGGQDSTTCLIQALQ---------DYDDVHCITFDYGQR   39 (232)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHH---------HCSEEEEEEEESSSS
T ss_pred             CCEEEEecCcHHHHHHHHHHHH---------cCCCEEEEEEECCCC
Confidence            6899999999999999999986         137899999999973

>2der_A TRNA-specific 2-thiouridylase MNMA; protein-RNA complex, transferase/RNA complex; 3.10A {Escherichia coli} PDB: 2det_A 2deu_A*

Probab=98.83  E-value=2.8e-09  Score=76.67  Aligned_cols=39  Identities=26%  Similarity=0.359  Sum_probs=34.2

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+++||+||+|||+||++++++|.+         .|+++.++|++++.
T Consensus        15 ~~~~kVvVa~SGGvDSsv~a~lL~~---------~G~~V~~v~~~~~~   53 (380)
T 2der_A           15 ETAKKVIVGMSGGVDSSVSAWLLQQ---------QGYQVEGLFMKNWE   53 (380)
T ss_dssp             --CCEEEEECCSCSTTHHHHHHHHT---------TCCEEEEEEEECCC
T ss_pred             CCCCEEEEEEEChHHHHHHHHHHHH---------cCCeEEEEEEEcCc
Confidence            4678999999999999999999986         48999999999986

>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=98.83  E-value=3.3e-09  Score=76.85  Aligned_cols=37  Identities=30%  Similarity=0.387  Sum_probs=33.4

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +||+||+|||+||+++++++.+        .+++++.++|+|+|.
T Consensus         1 ~kVvva~SGG~DSsvll~ll~~--------~~g~~V~av~vd~g~   37 (400)
T 1kor_A            1 MKIVLAYSGGLDTSIILKWLKE--------TYRAEVIAFTADIGQ   37 (400)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHH--------HHTCEEEEEEEESSC
T ss_pred             CcEEEEEeChHHHHHHHHHHHH--------hhCCcEEEEEEeCCC
Confidence            5899999999999999999986        347899999999996

>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=98.82  E-value=4.4e-09  Score=75.44  Aligned_cols=38  Identities=26%  Similarity=0.400  Sum_probs=34.7

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +++||+|++|||+||++++++|.+         .|+++.++|++++.
T Consensus         8 ~~~kVlVa~SGGvDSsv~a~lL~~---------~G~~V~~v~~~~~~   45 (376)
T 2hma_A            8 SKTRVVVGMSGGVDSSVTALLLKE---------QGYDVIGIFMKNWD   45 (376)
T ss_dssp             GGSEEEEECCSSHHHHHHHHHHHH---------TTCEEEEEEEECCC
T ss_pred             CCCeEEEEEeCHHHHHHHHHHHHH---------cCCcEEEEEEECCC
Confidence            467999999999999999999987         47999999999986

>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=98.82  E-value=5e-09  Score=77.20  Aligned_cols=39  Identities=33%  Similarity=0.493  Sum_probs=34.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      +++|+||+|||+||+++++++.+        . |+++.++|+|+|+.+
T Consensus       209 ~~kvvvalSGGvDSsvla~ll~~--------~-g~~v~av~vd~g~~~  247 (503)
T 2ywb_A          209 KDRVLLAVSGGVDSSTLALLLAK--------A-GVDHLAVFVDHGLLR  247 (503)
T ss_dssp             TSEEEEEECSSHHHHHHHHHHHH--------H-TCEEEEEEEECSCSC
T ss_pred             CccEEEEecCCcchHHHHHHHHH--------c-CCeEEEEEEeCCCCC
Confidence            47999999999999999999987        1 789999999999843

>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=98.80  E-value=7e-09  Score=74.91  Aligned_cols=39  Identities=26%  Similarity=0.145  Sum_probs=34.5

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +..+++++|++|||+||+++++++.+         .|+++.++|+|++
T Consensus       184 i~~~~kvlvalSGGvDS~vll~ll~~---------~G~~v~av~v~~~  222 (413)
T 2c5s_A          184 VGVGGKVMVLLSGGIDSPVAAYLTMK---------RGVSVEAVHFHSP  222 (413)
T ss_dssp             TTTTEEEEEECCSSSHHHHHHHHHHH---------BTEEEEEEEEECT
T ss_pred             cCCCCeEEEEeCCCChHHHHHHHHHH---------cCCcEEEEEEeCC
Confidence            34578999999999999999999986         3799999999975

>2wsi_A FAD synthetase; transferase, nucleotidyltransferase, nucleotide-binding; HET: FAD; 1.90A {Saccharomyces cerevisiae}

Probab=98.73  E-value=8.5e-09  Score=72.13  Aligned_cols=46  Identities=13%  Similarity=0.201  Sum_probs=34.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhh------------c-ccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSS------------H-KRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~------------~-~~~~~~~~~v~vd~~~   50 (70)
                      +++|+|+||||+||+|||+++.+.+.+..            . ...+.++.++|+|+|.
T Consensus        53 ~~~i~vafSGGKDS~VLL~L~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~vv~iDtg~  111 (306)
T 2wsi_A           53 NGEISFSYNGGKDCQVLLLLYLSCLWEYFFIKAQNSQFDFEFQSFPMQRLPTVFIDQEE  111 (306)
T ss_dssp             SSSEEEECCSCHHHHHHHHHHHHHHHHHHHHHHHHC--------CCCCCEEEEECCCTT
T ss_pred             cCCEEEEecCCHHHHHHHHHHHHHHhhhcccccccccccccccccCCCCeeEEEEeCCC
Confidence            36899999999999999999988443210            0 0124678999999996

>2nz2_A Argininosuccinate synthase; amino-acid biosynthesis, aspartate, citrulline, ST genomics, structural genomics consortium, SGC, ligase; HET: CIR; 2.40A {Homo sapiens}

Probab=98.73  E-value=1.4e-08  Score=73.93  Aligned_cols=38  Identities=26%  Similarity=0.434  Sum_probs=34.1

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .++||+||+|||+||+++++++.+        . |+++.++|+|+|.
T Consensus         4 ~~~kVvvalSGGlDSsvll~lL~e--------~-G~eV~av~vd~g~   41 (413)
T 2nz2_A            4 SKGSVVLAYSGGLDTSCILVWLKE--------Q-GYDVIAYLANIGQ   41 (413)
T ss_dssp             -CEEEEEECCSSHHHHHHHHHHHH--------T-TEEEEEEEEESSC
T ss_pred             CCCeEEEEEcChHHHHHHHHHHHH--------c-CCEEEEEEEECCc
Confidence            467999999999999999999986        2 7899999999997

>3uow_A GMP synthetase; structural genomics consortium, SGC, purine nucleotide biosy process, ligase; HET: XMP; 2.72A {Plasmodium falciparum}

Probab=98.68  E-value=1.4e-08  Score=75.99  Aligned_cols=40  Identities=23%  Similarity=0.293  Sum_probs=35.7

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +.++|++|+|||+||++++.++.+        .+|.++.++|+|+|+.
T Consensus       254 ~~~~vvvalSGGvDSsv~a~ll~~--------~~G~~v~~v~vd~g~~  293 (556)
T 3uow_A          254 HDHYVIAAMSGGIDSTVAAAYTHK--------IFKERFFGIFIDNGLL  293 (556)
T ss_dssp             TTCEEEEECCSSHHHHHHHHHHHH--------HHGGGEEEEEEECSCS
T ss_pred             CCceEEEEcccCCCHHHHHHHHHH--------HhCCeEEEEEEecCCC
Confidence            368999999999999999999986        4578999999999984

>3p52_A NH(3)-dependent NAD(+) synthetase; structural genomics, center for structural genomics of infec diseases, NADE, CSGI; 2.74A {Campylobacter jejuni} SCOP: c.26.2.0

Probab=98.63  E-value=2.1e-08  Score=68.50  Aligned_cols=39  Identities=18%  Similarity=0.221  Sum_probs=34.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++|+|++|||+||+++++++.+        .+|.++.++|++++.
T Consensus        25 g~~~vvv~lSGGiDSsv~a~l~~~--------~~g~~v~av~~~~~~   63 (249)
T 3p52_A           25 QSQGVVLGLSGGIDSALVATLCKR--------ALKENVFALLMPTQI   63 (249)
T ss_dssp             SCSEEEEECCSSHHHHHHHHHHHH--------HHTTSEEEEECCSCC
T ss_pred             CCCCEEEEcCCCHHHHHHHHHHHH--------HcCCcEEEEEecCCC
Confidence            357999999999999999999987        246899999999986

>2goy_A Adenosine phosphosulfate reductase; iron sulfur cluster, nucleotide binding, thiosulfonate intermediate, oxidoreductase; HET: ADX; 2.70A {Pseudomonas aeruginosa}

Probab=98.62  E-value=6.8e-09  Score=71.24  Aligned_cols=37  Identities=19%  Similarity=0.377  Sum_probs=32.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++|+|++| |+||++||+++.+         .+.++.++|+|+|+.
T Consensus        54 g~~i~Va~S-GkDS~vLL~Ll~~---------~~~~i~vv~iDtg~~   90 (275)
T 2goy_A           54 GDELWISFS-GAEDVVLVDMAWK---------LNRNVKVFSLDTGRL   90 (275)
T ss_dssp             STTEEEECC-SSTTHHHHHHHHH---------HCTTCCEEEECCSCC
T ss_pred             CCCEEEEee-cHHHHHHHHHHHH---------hCCCceEEEEeCCCC
Confidence            478999999 9999999999987         246788999999984

>1gpm_A GMP synthetase, XMP aminase; class I glutamine amidotransferase, N-type ATP pyrophosphata transferase (glutamine amidotransferase); HET: AMP CIT; 2.20A {Escherichia coli} SCOP: c.23.16.1 c.26.2.1 d.52.2.1

Probab=98.62  E-value=3.6e-08  Score=73.01  Aligned_cols=39  Identities=28%  Similarity=0.493  Sum_probs=34.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .+++++++|||+||+++++++.+        .+|.++.++|+|+++.
T Consensus       227 ~~~vvvalSGGvDSsv~a~ll~~--------a~G~~v~av~v~~g~~  265 (525)
T 1gpm_A          227 DDKVILGLSGGVDSSVTAMLLHR--------AIGKNLTCVFVDNGLL  265 (525)
T ss_dssp             TCEEEEECCSSHHHHHHHHHHHH--------HHGGGEEEEEEECSCS
T ss_pred             ccceEEEecCCCCHHHHHHHHHH--------HhCCCEEEEEEeCCCC
Confidence            47999999999999999999986        2468999999999984

>2e18_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics, NPPSFA, national project on Pro structural and functional analyses; 2.10A {Pyrococcus horikoshii}

Probab=98.61  E-value=2.6e-08  Score=67.31  Aligned_cols=38  Identities=16%  Similarity=0.145  Sum_probs=32.9

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~   50 (70)
                      .++|+|++|||+||+++++++.+        ..+ .++.++|++++.
T Consensus        22 ~~~vvv~lSGGiDSs~~~~l~~~--------~~g~~~v~av~~~~~~   60 (257)
T 2e18_A           22 NNGVVIGISGGVDSATVAYLATK--------ALGKEKVLGLIMPYFE   60 (257)
T ss_dssp             TTCEEEECCSSHHHHHHHHHHHH--------HHCGGGEEEEECCSSC
T ss_pred             CCcEEEEecCCHHHHHHHHHHHH--------hcCCCcEEEEEeCCCC
Confidence            57899999999999999999987        223 689999999985

>2vxo_A GMP synthase [glutamine-hydrolyzing]; proto-oncogene, phosphoprotein, GMP synthetase, guanine monophosphate synthetase, chromosomal rearrangement; HET: XMP; 2.5A {Homo sapiens}

Probab=98.56  E-value=9e-08  Score=73.46  Aligned_cols=40  Identities=35%  Similarity=0.404  Sum_probs=35.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGSIS   52 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~~~   52 (70)
                      .+++++++|||+||+++++++.+        .+| .++.++|+|+|+++
T Consensus       240 ~~~vvv~lSGGvDSsVla~Ll~~--------alG~~~V~aV~vd~g~~~  280 (697)
T 2vxo_A          240 TSKVLVLLSGGVDSTVCTALLNR--------ALNQEQVIAVHIDNGFMR  280 (697)
T ss_dssp             TCEEEEECCSSHHHHHHHHHHHH--------HSCGGGEEEEEEECSCCC
T ss_pred             ccceEEEccCchHHHHHHHHHHH--------hcCCceEEEEEeccccCC
Confidence            47999999999999999999986        356 89999999999853

>1vl2_A Argininosuccinate synthase; TM1780, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics, ligase; 1.65A {Thermotoga maritima} SCOP: c.26.2.1 d.210.1.1

Probab=98.55  E-value=1.1e-07  Score=69.75  Aligned_cols=37  Identities=32%  Similarity=0.504  Sum_probs=34.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+||+||+|||.||++++.++++        + |.++.++|+|.|.
T Consensus        14 ~~KVVVA~SGGlDSSv~a~~Lke--------~-G~eViavt~d~Gq   50 (421)
T 1vl2_A           14 KEKVVLAYSGGLDTSVILKWLCE--------K-GFDVIAYVANVGQ   50 (421)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHH--------T-TCEEEEEEEESSC
T ss_pred             cCCEEEEeCCcHHHHHHHHHHHH--------C-CCeEEEEEEEcCC
Confidence            47899999999999999999987        3 8999999999996

>1xng_A NH(3)-dependent NAD(+) synthetase; amidotransferase, ligase; HET: DND ATP; 1.70A {Helicobacter pylori} SCOP: c.26.2.1 PDB: 1xnh_A

Probab=98.53  E-value=5.9e-08  Score=66.05  Aligned_cols=39  Identities=21%  Similarity=0.135  Sum_probs=33.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++|+|++|||+||+++++++.+.        .+.++.++|++++.
T Consensus        24 ~~~~vvv~lSGGiDSsv~~~l~~~~--------~~~~v~av~~~~~~   62 (268)
T 1xng_A           24 GFKKVVYGLSGGLDSAVVGVLCQKV--------FKENAHALLMPSSV   62 (268)
T ss_dssp             TCCCEEEECCSSHHHHHHHHHHHHH--------HGGGEEEEECCCSS
T ss_pred             CCCCEEEEccCcHHHHHHHHHHHHh--------CCCCEEEEEeCCCC
Confidence            4578999999999999999999871        14689999999885

>3fiu_A NH(3)-dependent NAD(+) synthetase; rossman fold, adenine nucleotide alpha hydrolase-like, ATP- binding, ligase, nucleotide-binding; HET: AMP; 1.85A {Francisella tularensis subsp}

Probab=98.33  E-value=6.9e-07  Score=60.81  Aligned_cols=38  Identities=16%  Similarity=0.272  Sum_probs=30.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ..++|+|++|||.||+++++++.+        .. .+..++|++++.
T Consensus        28 ~~~~vvv~lSGGiDSsv~a~l~~~--------~~-~~~~av~~~~~~   65 (249)
T 3fiu_A           28 PAEGFVIGLSGGIDSAVAASLAVK--------TG-LPTTALILPSDN   65 (249)
T ss_dssp             TCSEEEEECCSSHHHHHHHHHHHH--------TT-SCEEEEECCCTT
T ss_pred             CCCCEEEEecCcHHHHHHHHHHHH--------hC-CCCEEEEecCCC
Confidence            358999999999999999999987        12 344499999875

>3fwk_A FMN adenylyltransferase; FAD biosynthesis, alpha/beta protein, rossmann- like fold, APO-form, extended loop region; HET: BGC; 1.20A {Candida glabrata} PDB: 3g59_A* 3g5a_A* 3g6k_A*

Probab=98.33  E-value=5e-07  Score=64.14  Aligned_cols=46  Identities=15%  Similarity=0.263  Sum_probs=31.2

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhh-c--------cc---C-CceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSS-H--------KR---I-LFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~-~--------~~---~-~~~~~~v~vd~~~~   51 (70)
                      ++++++||||+||+||||++.+.+.+.. .        .+   . ..++.++|+|+|..
T Consensus        59 ~~ialSfSGGKDStVLLhL~~kal~~~~~~~~~~~~~~~~~~~~p~~~ipvifiDTG~~  117 (308)
T 3fwk_A           59 GEISFSYNGGKDCQVLLLLYLSCLWEYYIVKLSQSQFDGKFHRFPLTKLPTVFIDHDDT  117 (308)
T ss_dssp             SSEEEECCSSHHHHHHHHHHHHHHHHHHTCCE-----------------EEEECCCTTC
T ss_pred             CCEEEEecCChhHHHHHHHHHHHhhhhcccccccccccccccccCCCCccEEEEeCCCC
Confidence            6799999999999999999987432100 0        00   1 24788999999974

>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=98.13  E-value=3.3e-06  Score=57.75  Aligned_cols=35  Identities=26%  Similarity=0.134  Sum_probs=29.1

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      -|+++++|||+||++.++++.+         .|+++.+++...+
T Consensus         5 MKvvvl~SGGkDSs~al~~l~~---------~G~eV~~L~~~~~   39 (237)
T 3rjz_A            5 ADVAVLYSGGKDSNYALYWAIK---------NRFSVKFLVTMVS   39 (237)
T ss_dssp             SEEEEECCSSHHHHHHHHHHHH---------TTCEEEEEEEEEC
T ss_pred             CEEEEEecCcHHHHHHHHHHHH---------cCCeEEEEEEEcC
Confidence            4899999999999999998876         4788888766544

>1wxi_A NH(3)-dependent NAD(+) synthetase; NADE, E.coli, ligase; HET: AMP; 1.70A {Escherichia coli} SCOP: c.26.2.1 PDB: 1wxf_A 1wxg_A* 1wxh_A* 1wxe_A* 3hmq_A*

Probab=97.92  E-value=1e-05  Score=55.82  Aligned_cols=45  Identities=16%  Similarity=0.133  Sum_probs=31.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcc---cCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHK---RILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~---~~~~~~~~v~vd~~~   50 (70)
                      ..+++|++|||.||++++.++++-+.. +..   .-++++.+++++.+.
T Consensus        40 ~~~vvvglSGGvDSsv~a~L~~~a~~~-lg~~~~~~~~~v~av~~~~~~   87 (275)
T 1wxi_A           40 IKSLVLGISGGQDSTLAGKLCQMAINE-LRLETGNESLQFIAVRLPYGV   87 (275)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHHHHH-HHHHHCCTTCEEEEEECCSSS
T ss_pred             CCCEEEECcCcHHHHHHHHHHHHHHHH-hccccccccceEEEEEeCCCC
Confidence            468999999999999999888762210 000   114588999988653

>1kqp_A NAD+ synthase, NH(3)-dependent NAD(+) synthetase, SPOR; ligase, amidotransferase, ATP pyrophosphatase, NAD-adenylate; HET: ADJ; 1.03A {Bacillus subtilis} SCOP: c.26.2.1 PDB: 1fyd_A* 1ifx_A* 1ee1_A* 1ih8_A* 1nsy_A* 2nsy_A* 2pzb_A 2pza_A* 2pz8_A

Probab=97.87  E-value=9.4e-06  Score=55.64  Aligned_cols=44  Identities=16%  Similarity=0.126  Sum_probs=30.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~   49 (70)
                      ..+|+|++|||.||++++.++++-... +....+ .++.+++++.+
T Consensus        38 ~~~vvvgLSGGvDSsv~a~La~~a~~~-lg~~~~~~~v~av~~~~~   82 (271)
T 1kqp_A           38 AKGFVLGISGGQDSTLAGRLAQLAVES-IREEGGDAQFIAVRLPHG   82 (271)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHHHHH-HHHTTCCCEEEEEECCSS
T ss_pred             CCCEEEECCCCHHHHHHHHHHHHHHHH-hcccCCCceEEEEEeCCC
Confidence            468999999999999999988762110 000001 57888998865

>3n05_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics, protein structure initiative, P nysgrc; 2.35A {Streptomyces avermitilis}

Probab=97.86  E-value=1.1e-05  Score=60.21  Aligned_cols=38  Identities=16%  Similarity=0.175  Sum_probs=32.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC-ceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL-FSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~-~~~~~v~vd~~~   50 (70)
                      .++|+|++|||.||++++.++.+        .+| .++.+++++.+.
T Consensus       326 ~~~vvvglSGGvDSsv~a~la~~--------alG~~~v~~v~m~~~~  364 (590)
T 3n05_A          326 FRSVLIGLSGGIDSALVAAIACD--------ALGAQNVYGVSMPSKY  364 (590)
T ss_dssp             CCCEEEECCSSHHHHHHHHHHHH--------HHCGGGEEEEECCCSS
T ss_pred             CCcEEEEcCCCHHHHHHHHHHHH--------HhCcccEEEEEECCCC
Confidence            46899999999999999998876        345 789999999765

>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=97.79  E-value=3.7e-05  Score=53.66  Aligned_cols=37  Identities=14%  Similarity=0.223  Sum_probs=32.0

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ....|+++++|| .||+++++++.+         .|+++.++|++.+
T Consensus       177 g~~~kvlvllSG-vDS~vaa~ll~~---------~G~~v~~v~~~~~  213 (307)
T 1vbk_A          177 GTEGRMIGILHD-ELSALAIFLMMK---------RGVEVIPVYIGKD  213 (307)
T ss_dssp             TTTCEEEEECSS-HHHHHHHHHHHH---------BTCEEEEEEESCS
T ss_pred             CCCCcEEEEEeC-CcHHHHHHHHHh---------CCCeEEEEEEEEC
Confidence            345799999999 999999999886         4899999999943

>3q4g_A NH(3)-dependent NAD(+) synthetase; structural genomics, csgid, center for structural genomics O infectious diseases, alpha beta; 2.40A {Vibrio cholerae} SCOP: c.26.2.0

Probab=97.76  E-value=2e-05  Score=54.77  Aligned_cols=45  Identities=16%  Similarity=0.206  Sum_probs=32.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhc---ccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSH---KRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~---~~~~~~~~~v~vd~~~   50 (70)
                      .++++|++|||.||++++.++++-.. .+.   ...+.++.+++++.+.
T Consensus        40 ~~~vvvglSGGvDSal~a~l~~~A~~-~Lg~~~~~~~~~v~av~~p~~~   87 (279)
T 3q4g_A           40 YKSLVLGISGGVDSTTCGRLAQLAVE-ELNQQHNTTEYQFIAVRLPYGE   87 (279)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHHHH-HHHHHTTCSCCEEEEEECCSSS
T ss_pred             CCCEEEEccCCHHHHHHHHHHHHHHH-HhCcccccCCceEEEEEecCCC
Confidence            47899999999999999998765211 110   1125689999998653

>3dpi_A NAD+ synthetase; ssgcid, decode, structural genomics, PSI, protein structure initiative; 2.20A {Burkholderia pseudomallei} SCOP: c.26.2.0

Probab=97.50  E-value=0.00017  Score=50.37  Aligned_cols=44  Identities=16%  Similarity=0.097  Sum_probs=29.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhc-ccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSH-KRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~-~~~~~~~~~v~vd~~   49 (70)
                      .++++|++|||.||++++.++..-.. .+. .....++.++++..+
T Consensus        46 ~~~vvvglSGGiDSal~a~La~~A~d-aLG~~~~~~~viav~~p~~   90 (285)
T 3dpi_A           46 LRACVLGISGGIDSSTAGRLAQLAVE-RLRASGYDARFVAMRLPYG   90 (285)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHHHHH-HHHHTTCCCEEEEEECCSC
T ss_pred             CCcEEEEccCChhHHHHHHHHHHHHH-HhcccCcccEEEEEEcCCC
Confidence            47899999999999999888765111 111 112236777777654

>3sdb_A Glutamine-dependent NAD(+) synthetase; glutamine-amidotransferase, glutaminase, glutamine-dependent synthetase, ligase; 2.00A {Mycobacterium tuberculosis} PDB: 3seq_A* 3sez_A* 3szg_A* 3dla_A* 3syt_A*

Probab=97.42  E-value=0.00012  Score=55.97  Aligned_cols=41  Identities=22%  Similarity=0.176  Sum_probs=30.1

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCC---ceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRIL---FSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~---~~~~~v~vd~~~   50 (70)
                      .++++|++|||.||++++.++.+-.     +.+|   .++.+++++...
T Consensus       361 ~~~vvvglSGGvDSsvaa~l~~~a~-----~~lg~~~~~v~~v~m~~~~  404 (680)
T 3sdb_A          361 YPKVVIGVSGGLDSTHALIVATHAM-----DREGRPRSDILAFALPGFA  404 (680)
T ss_dssp             SCEEEEECCSSHHHHHHHHHHHHHH-----HHTTCCGGGEEEEECCC--
T ss_pred             CCcEEEEecCCccHHHHHHHHHHHH-----HHhCCCCceEEEEEECCCC
Confidence            4689999999999998877776522     2344   678999998554

>3ilv_A Glutamine-dependent NAD(+) synthetase; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.79A {Cytophaga hutchinsonii atcc 33406}

Probab=97.12  E-value=0.00033  Score=52.93  Aligned_cols=23  Identities=17%  Similarity=0.250  Sum_probs=19.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQ   26 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~   26 (70)
                      ..++|+|++|||.||++++.++.
T Consensus       302 g~~~vvlglSGGvDSsv~A~Lv~  324 (634)
T 3ilv_A          302 RSKGFVLSLSGGADSSACAIMVA  324 (634)
T ss_dssp             TCCSEEEECCSSHHHHHHHHHHH
T ss_pred             CCCeEEEEccCCHHHHHHHHHHH
Confidence            34789999999999998887754

>1q15_A CARA; CMPR, (2S,5S)-5-carboxymethylproline, B-LS, B-lactam synthetase, AS-B, class B asparagine synthetase, AMP-CPP; 2.30A {Pectobacterium carotovorum} SCOP: c.26.2.1 d.153.1.1 PDB: 1q19_A*

Probab=96.57  E-value=0.0023  Score=47.10  Aligned_cols=35  Identities=20%  Similarity=0.144  Sum_probs=26.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ...+|.+++|||.||++++.++.+         .+.++.++++.
T Consensus       237 sd~~v~v~LSGGlDSs~vaala~~---------~~~~~~~~t~~  271 (503)
T 1q15_A          237 RFDTVGIPLSGGLDSSLVTALASR---------HFKKLNTYSIG  271 (503)
T ss_dssp             GCSEEEEECCSSHHHHHHHHHHTT---------TCSEEEEEEEE
T ss_pred             CCCcEEEECCCCHHHHHHHHHHHH---------hCCCcEEEEEe
Confidence            356899999999999999988875         22356666665

>1jgt_A Beta-lactam synthetase; asparagine synthetase, clavulanic AC AMPCPP, CEA, carboxyethylarginine, hydrolase; HET: APC CMA; 1.95A {Streptomyces clavuligerus} SCOP: c.26.2.1 d.153.1.1 PDB: 1m1z_A 1mb9_A* 1mbz_A* 1mc1_A*

Probab=96.23  E-value=0.0027  Score=46.82  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ...+|.+.+|||.||++++.++.+
T Consensus       240 sd~~vgv~LSGGlDSS~vaala~~  263 (513)
T 1jgt_A          240 PGDTPLVVLSGGIDSSGVAACAHR  263 (513)
T ss_dssp             TTCCCEEECCSSHHHHHHHHHHHH
T ss_pred             CCCcEEEECCCcHHHHHHHHHHHH
Confidence            346899999999999999999887

>1ct9_A Asparagine synthetase B; amidotransferase, substrate channeling, asparagine biosynthesis, ligase; HET: AMP GLN; 2.00A {Escherichia coli} SCOP: c.26.2.1 d.153.1.1

Probab=96.04  E-value=0.0048  Score=45.89  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=21.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ...+|.+.+|||.||++++.++.+
T Consensus       225 sdvpvgv~LSGGlDSS~iaala~~  248 (553)
T 1ct9_A          225 SDVPYGVLLSGGLDSSIISAITKK  248 (553)
T ss_dssp             CSSCEEEECCSSHHHHHHHHHHHH
T ss_pred             CCCceEEeCCCCccHHHHHHHHHH
Confidence            356899999999999999999987

>4f4h_A Glutamine dependent NAD+ synthetase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ligase; 1.75A {Burkholderia thailandensis}

Probab=94.92  E-value=0.024  Score=42.32  Aligned_cols=38  Identities=16%  Similarity=0.204  Sum_probs=27.4

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ..++++|++|||.||++.+.+..+-|.       .-++.++++-.
T Consensus       299 g~~~~vlglSGGiDSal~~~la~~alg-------~~~v~~v~mp~  336 (565)
T 4f4h_A          299 GFPGAIIGLSGGVDSALVLAVAVDALG-------AERVRAVMMPS  336 (565)
T ss_dssp             TCCCEEEECCSSHHHHHHHHHHHHHHC-------GGGEEEEECCC
T ss_pred             CCCcEEEecCCCccHHHHHHHHHHHhC-------CccEEEEeccc
Confidence            347899999999999999888776221       23566666543

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

Probab=94.57  E-value=0.11  Score=31.37  Aligned_cols=44  Identities=18%  Similarity=0.104  Sum_probs=33.6

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      |....++|+|++.|..+|..++....+ +    .+..+.++.++|+-..
T Consensus         1 M~~m~~~ILv~vD~s~~s~~al~~A~~-l----a~~~~a~l~ll~v~~~   44 (170)
T 2dum_A            1 MIFMFRKVLFPTDFSEGAYRAVEVFEK-R----NKMEVGEVILLHVIDE   44 (170)
T ss_dssp             ---CCSEEEEECCSSHHHHHHHHHHHH-H----CCSCCSEEEEEEEEET
T ss_pred             CccccceEEEEecCCHHHHHHHHHHHH-H----HHhcCCEEEEEEEecC
Confidence            445568999999999999988888877 3    3467889999998643

>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=94.50  E-value=0.13  Score=30.71  Aligned_cols=40  Identities=15%  Similarity=0.044  Sum_probs=33.1

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ...+|+|++.|...|..++....+ +    .+..+.++.++|+-.
T Consensus         4 ~~~~ILv~vD~s~~s~~al~~a~~-l----a~~~~a~l~ll~v~~   43 (162)
T 1mjh_A            4 MYKKILYPTDFSETAEIALKHVKA-F----KTLKAEEVILLHVID   43 (162)
T ss_dssp             CCCEEEEECCSCHHHHHHHHHHHH-T----CCSSCCEEEEEEEEE
T ss_pred             ccceEEEEeCCCHHHHHHHHHHHH-H----HhhcCCeEEEEEEec
Confidence            468999999999999988888877 3    346788999999964

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

Probab=92.82  E-value=0.32  Score=28.16  Aligned_cols=41  Identities=15%  Similarity=0.141  Sum_probs=33.7

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ++|+|++.|...|..++....+ +.   .+..+.++.++|+....
T Consensus         2 ~~ILv~~D~s~~s~~al~~a~~-la---~~~~~a~l~ll~v~~~~   42 (138)
T 3idf_A            2 KKLLFAIDDTEACERAAQYILD-MF---GKDADCTLTLIHVKPEF   42 (138)
T ss_dssp             EEEEEECCSSHHHHHHHHHHHH-HH---TTCTTEEEEEEEEECCC
T ss_pred             ceEEEEeCCCHHHHHHHHHHHH-Hh---ccCCCCEEEEEEEecCC
Confidence            5899999999999999888887 32   04678999999998764

>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=92.70  E-value=0.21  Score=29.11  Aligned_cols=39  Identities=10%  Similarity=0.121  Sum_probs=31.9

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ++|+|++.|...|..++....+ +.    +..+.++.++|+...
T Consensus         3 ~~ILv~~D~s~~s~~al~~a~~-la----~~~~a~l~ll~v~~~   41 (137)
T 2z08_A            3 KTILLAYDGSEHARRAAEVAKA-EA----EAHGARLIVVHAYEP   41 (137)
T ss_dssp             SEEEEECCSSHHHHHHHHHHHH-HH----HHHTCEEEEEEEECC
T ss_pred             ceEEEEeCCCHHHHHHHHHHHH-HH----hhcCCEEEEEEEecC
Confidence            6899999999999988888776 33    346789999999864

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

Probab=92.61  E-value=0.2  Score=29.19  Aligned_cols=39  Identities=28%  Similarity=0.198  Sum_probs=31.4

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      .++|+|++.|...|..++....+ +.    +..+.++.++|+..
T Consensus         2 ~~~ILv~~D~s~~s~~al~~a~~-la----~~~~a~l~ll~v~~   40 (141)
T 1jmv_A            2 YKHILVAVDLSEESPILLKKAVG-IA----KRHDAKLSIIHVDV   40 (141)
T ss_dssp             CSEEEEEECCSTTHHHHHHHHHH-HH----HHHTCEEEEEEEEE
T ss_pred             CceEEEEecCchhhHHHHHHHHH-HH----HhcCCEEEEEEEec
Confidence            36899999999999988888776 33    34678999999973

>3nbm_A PTS system, lactose-specific IIBC components; PTS_IIB_LACTOSE, phosphoenolpyruvate:carbohydrate system, P- phosphorylation; HET: MSE; 1.30A {Streptococcus pneumoniae}

Probab=92.58  E-value=0.23  Score=29.83  Aligned_cols=42  Identities=31%  Similarity=0.251  Sum_probs=29.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      +.-||++.+++|..|+.|..-+++..     ++.|.++.+.....+.
T Consensus         5 ~~mkIlL~C~aGmSTsllv~km~~~a-----~~~gi~v~i~a~~~~~   46 (108)
T 3nbm_A            5 KELKVLVLCAGSGTSAQLANAINEGA-----NLTEVRVIANSGAYGA   46 (108)
T ss_dssp             CCEEEEEEESSSSHHHHHHHHHHHHH-----HHHTCSEEEEEEETTS
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHH-----HHCCCceEEEEcchHH
Confidence            44589999999998888877777633     2456777766655543

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

Probab=92.57  E-value=0.22  Score=29.01  Aligned_cols=39  Identities=13%  Similarity=0.171  Sum_probs=32.6

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ++|+|++.|...|..++....+ +.    ++.+.++.++|+...
T Consensus         3 ~~ILv~vD~s~~s~~al~~A~~-la----~~~~a~l~ll~v~~~   41 (147)
T 3hgm_A            3 NRIMVPVDGSKGAVKALEKGVG-LQ----QLTGAELYILCVFKH   41 (147)
T ss_dssp             SEEEEECCSBHHHHHHHHHHHH-HH----HHHCCEEEEEEEECC
T ss_pred             ceEEEEeCCCHHHHHHHHHHHH-HH----HhcCCEEEEEEEecC
Confidence            6899999999999999888887 33    346889999999864

>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=92.20  E-value=0.3  Score=28.67  Aligned_cols=41  Identities=15%  Similarity=0.166  Sum_probs=33.2

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..++|+|++.|...|..++....+ +.    +..+.++.++|+...
T Consensus         5 ~~~~ILv~vD~s~~s~~al~~a~~-la----~~~~a~l~ll~v~~~   45 (150)
T 3tnj_A            5 VYHHILLAVDFSSEDSQVVQKVRN-LA----SQIGARLSLIHVLDN   45 (150)
T ss_dssp             CCSEEEEECCCSTTHHHHHHHHHH-HH----HHHTCEEEEEEEEC-
T ss_pred             ccceEEEEeCCCHHHHHHHHHHHH-HH----hhcCCEEEEEEEEcC
Confidence            467999999999999999888887 43    346789999999754

>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=91.97  E-value=0.24  Score=28.93  Aligned_cols=40  Identities=20%  Similarity=0.298  Sum_probs=32.8

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      .++|+|++.|...|..++....+ +.    +..+.++.++|+-..
T Consensus         5 ~~~ILv~~D~s~~s~~al~~A~~-la----~~~~a~l~ll~v~~~   44 (146)
T 3s3t_A            5 YTNILVPVDSSDAAQAAFTEAVN-IA----QRHQANLTALYVVDD   44 (146)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHH-HH----HHHTCEEEEEEEEEC
T ss_pred             cceEEEEcCCCHHHHHHHHHHHH-HH----HhcCCEEEEEEEecC
Confidence            57999999999999998888887 33    346789999999754

>3zqu_A Probable aromatic acid decarboxylase; lyase; HET: FNR; 1.50A {Pseudomonas aeruginosa} SCOP: c.34.1.0

Probab=91.63  E-value=0.4  Score=31.85  Aligned_cols=38  Identities=16%  Similarity=0.146  Sum_probs=30.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ...||+|++||+.-..-...+++. |++     .|.++.++.-.
T Consensus         3 ~~k~IllgvTGaiaa~k~~~ll~~-L~~-----~g~eV~vv~T~   40 (209)
T 3zqu_A            3 GPERITLAMTGASGAQYGLRLLDC-LVQ-----EEREVHFLISK   40 (209)
T ss_dssp             SCSEEEEEECSSSCHHHHHHHHHH-HHH-----TTCEEEEEECH
T ss_pred             CCCEEEEEEECHHHHHHHHHHHHH-HHH-----CCCEEEEEECc
Confidence            457999999999999999999998 653     47888777544

>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=91.59  E-value=0.33  Score=28.15  Aligned_cols=38  Identities=5%  Similarity=-0.000  Sum_probs=31.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      ..+|+|++.|...|..++....+ +.    ++.+.++.++|+.
T Consensus         4 ~~~ILv~~D~s~~s~~al~~a~~-la----~~~~a~l~ll~v~   41 (138)
T 1q77_A            4 MKVLLVLTDAYSDCEKAITYAVN-FS----EKLGAELDILAVL   41 (138)
T ss_dssp             CEEEEEEESTTCCCHHHHHHHHH-HH----TTTCCEEEEEEEC
T ss_pred             ccEEEEEccCCHhHHHHHHHHHH-HH----HHcCCeEEEEEEe
Confidence            47899999999999888888776 33    4678899999986

>1e2b_A Enzyme IIB-cellobiose; phosphotransferase system, transferas transport, phosphorylation; NMR {Escherichia coli} SCOP: c.44.2.1 PDB: 1iib_A 1h9c_A* 2wwv_D 2wy2_D

Probab=90.60  E-value=0.45  Score=28.14  Aligned_cols=40  Identities=10%  Similarity=0.066  Sum_probs=29.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .||++++++|..|+.++.-+++.++     +.|.++.+-+++.+-
T Consensus         4 kkIll~Cg~G~sTS~l~~k~~~~~~-----~~gi~~~i~a~~~~~   43 (106)
T 1e2b_A            4 KHIYLFSSAGMSTSLLVSKMRAQAE-----KYEVPVIIEAFPETL   43 (106)
T ss_dssp             EEEEEECSSSTTTHHHHHHHHHHHH-----HSCCSEEEEEECSSS
T ss_pred             cEEEEECCCchhHHHHHHHHHHHHH-----HCCCCeEEEEecHHH
Confidence            4799999999988888887777554     457777666666553

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

Probab=89.81  E-value=0.7  Score=28.09  Aligned_cols=39  Identities=21%  Similarity=0.219  Sum_probs=31.5

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEE--EEe
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAI--YID   47 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v--~vd   47 (70)
                      ....+|+|++.|...|..++....+ +    .+ .+.++.++  |+-
T Consensus        15 ~~~~~ILv~vD~s~~s~~al~~A~~-l----A~-~~a~l~ll~a~v~   55 (163)
T 1tq8_A           15 SAYKTVVVGTDGSDSSMRAVDRAAQ-I----AG-ADAKLIIASAYLP   55 (163)
T ss_dssp             CCCCEEEEECCSSHHHHHHHHHHHH-H----HT-TTSEEEEEEECCC
T ss_pred             ccCCEEEEEcCCCHHHHHHHHHHHH-H----hC-CCCEEEEEEeeec
Confidence            3468999999999999988888776 3    35 78899999  764

>2ejb_A Probable aromatic acid decarboxylase; phenylacrylic acid decarboxylase, X-RAY diffraction, structural genomics, NPPSFA; 2.15A {Aquifex aeolicus}

Probab=88.86  E-value=0.88  Score=29.58  Aligned_cols=34  Identities=24%  Similarity=0.363  Sum_probs=27.0

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEE
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIY   45 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~   45 (70)
                      .||++++||+....-...++++ |++     .|.++.++.
T Consensus         2 k~IllgvTGs~aa~k~~~l~~~-L~~-----~g~~V~vv~   35 (189)
T 2ejb_A            2 QKIALCITGASGVIYGIKLLQV-LEE-----LDFSVDLVI   35 (189)
T ss_dssp             CEEEEEECSSTTHHHHHHHHHH-HHH-----TTCEEEEEE
T ss_pred             CEEEEEEECHHHHHHHHHHHHH-HHH-----CCCEEEEEE
Confidence            5899999999999888888887 553     367777664

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

Probab=88.76  E-value=0.62  Score=27.57  Aligned_cols=41  Identities=7%  Similarity=0.071  Sum_probs=32.7

Q ss_pred             CCCeEEEEec--CchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFS--GSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~S--GG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..++|+|++.  |...|..++....+ +.    +..+.++.++|+-..
T Consensus        14 ~~~~ILv~vD~~~s~~s~~al~~a~~-la----~~~~a~l~ll~v~~~   56 (156)
T 3fg9_A           14 VYRRILLTVDEDDNTSSERAFRYATT-LA----HDYDVPLGICSVLES   56 (156)
T ss_dssp             CCC-EEEECCSCCCHHHHHHHHHHHH-HH----HHHTCCEEEEEEECC
T ss_pred             cCceEEEEECCCCCHHHHHHHHHHHH-HH----HhcCCEEEEEEEEeC
Confidence            3579999999  99999999888887 43    346789999999765

>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=88.09  E-value=0.32  Score=28.21  Aligned_cols=39  Identities=10%  Similarity=0.056  Sum_probs=32.0

Q ss_pred             CeEEEEecCchh--HHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHS--SMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~D--S~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ++|+|++.|...  |..++....+ +.    +..+.++.++|+...
T Consensus         2 k~ILv~vD~s~~~~s~~al~~a~~-la----~~~~a~l~ll~v~~~   42 (143)
T 3fdx_A            2 NAILVPIDISDKEFTERIISHVES-EA----RIDDAEVHFLTVIPS   42 (143)
T ss_dssp             CEEEEECCTTCSSCCTTHHHHHHH-HH----HHHTCEEEEEEEECC
T ss_pred             CEEEEEecCChHhhHHHHHHHHHH-HH----HhcCCeEEEEEEecC
Confidence            689999999999  8888888776 33    346789999999865

>2k0z_A Uncharacterized protein HP1203; A/B domain, structural genomics, unknown function, PSI-2, PR structure initiative; NMR {Helicobacter pylori}

Probab=88.07  E-value=2  Score=24.65  Aligned_cols=55  Identities=13%  Similarity=0.289  Sum_probs=37.9

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCcccccCccccccCCC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSKLNPNFGSVCPY   69 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~~~~~~~~~~c~~   69 (70)
                      .+.++|++-+.+|..|..+...|++         .|++-  ..++-|+ .+...+.+....+..|+-
T Consensus        54 ~~~~~ivvyC~~G~rs~~aa~~L~~---------~G~~~--~~l~GG~-~~W~~~g~p~~~~~~~~~  108 (110)
T 2k0z_A           54 HKDKKVLLHCRAGRRALDAAKSMHE---------LGYTP--YYLEGNV-YDFEKYGFRMVYDDTCDK  108 (110)
T ss_dssp             CSSSCEEEECSSSHHHHHHHHHHHH---------TTCCC--EEEESCG-GGTTTTTCCCBCCCSSCS
T ss_pred             CCCCEEEEEeCCCchHHHHHHHHHH---------CCCCE--EEecCCH-HHHHHCCCcEecCCCCCC
Confidence            4567788888888888877777775         57764  6788886 555555554455666753

>3qjg_A Epidermin biosynthesis protein EPID; structural genomics, center for structural genomics of infec diseases, csgid, oxidoreductase; HET: FMN; 2.04A {Staphylococcus aureus} SCOP: c.34.1.0

Probab=87.74  E-value=0.89  Score=29.33  Aligned_cols=38  Identities=24%  Similarity=0.374  Sum_probs=30.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ..||++++|||.-..-...++++ |+     +.|.++.++.=..
T Consensus         5 ~k~IllgvTGs~aa~k~~~ll~~-L~-----~~g~~V~vv~T~~   42 (175)
T 3qjg_A            5 GENVLICLCGSVNSINISHYIIE-LK-----SKFDEVNVIASTN   42 (175)
T ss_dssp             CCEEEEEECSSGGGGGHHHHHHH-HT-----TTCSEEEEEECTG
T ss_pred             CCEEEEEEeCHHHHHHHHHHHHH-HH-----HCCCEEEEEECcC
Confidence            36999999999999888888887 54     3578888776553

>1p3y_1 MRSD protein; flavoprotein, FMN, rossmann fold, HFCD family, oxdidative decarboxylation, cystein, lantibiotics, mersacidin, oxidore; HET: FAD; 2.54A {Bacillus SP} SCOP: c.34.1.1

Probab=87.38  E-value=0.57  Score=30.67  Aligned_cols=36  Identities=19%  Similarity=0.321  Sum_probs=28.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEE
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYI   46 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~v   46 (70)
                      +.||++++|||.-..-...++++ |+     +.|.++.++.=
T Consensus         8 ~k~IllgvTGs~aa~k~~~l~~~-L~-----~~g~~V~vv~T   43 (194)
T 1p3y_1            8 DKKLLIGICGSISSVGISSYLLY-FK-----SFFKEIRVVMT   43 (194)
T ss_dssp             GCEEEEEECSCGGGGGTHHHHHH-HT-----TTSSEEEEEEC
T ss_pred             CCEEEEEEECHHHHHHHHHHHHH-HH-----HCCCEEEEEEc
Confidence            57999999999998888888887 54     34778877654

>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=87.34  E-value=0.72  Score=29.86  Aligned_cols=37  Identities=16%  Similarity=0.301  Sum_probs=29.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      .||++++|||....-...++++ |+     +.|.++.++.-..
T Consensus         3 k~IllgvTGs~aa~k~~~l~~~-L~-----~~g~~V~vv~T~~   39 (181)
T 1g63_A            3 GKLLICATASINVININHYIVE-LK-----QHFDEVNILFSPS   39 (181)
T ss_dssp             CCEEEEECSCGGGGGHHHHHHH-HT-----TTSSCEEEEECGG
T ss_pred             CEEEEEEECHHHHHHHHHHHHH-HH-----HCCCEEEEEEchh
Confidence            4899999999999988888887 54     3478888876553

>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=87.34  E-value=0.81  Score=27.56  Aligned_cols=40  Identities=18%  Similarity=0.105  Sum_probs=32.9

Q ss_pred             CCeEEEEecC-chhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSG-SHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SG-G~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..+|+|++.| ...|..++....+ +.    +..+.++.++||...
T Consensus        24 ~~~ILv~vD~~s~~s~~al~~A~~-la----~~~~a~l~llhV~~~   64 (155)
T 3dlo_A           24 YMPIVVAVDKKSDRAERVLRFAAE-EA----RLRGVPVYVVHSLPG   64 (155)
T ss_dssp             CCCEEEECCSSSHHHHHHHHHHHH-HH----HHHTCCEEEEEEECC
T ss_pred             cCeEEEEECCCCHHHHHHHHHHHH-HH----HhcCCEEEEEEEEcC
Confidence            4689999999 9999999888887 33    346789999999765

>3lqk_A Dipicolinate synthase subunit B; flavoprotein, PSI2, MCSG, structural protein structure initiative, midwest center for structural genomics; 2.10A {Bacillus halodurans}

Probab=87.29  E-value=0.63  Score=30.62  Aligned_cols=41  Identities=15%  Similarity=0.181  Sum_probs=30.5

Q ss_pred             CCCCeEEEEecCchhHH-HHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           3 RPQDKVLVAFSGSHSSM-ALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~-~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      -.+.||++++||+.-.. -.+.++++ |+     +.|.++.++.=...
T Consensus         5 l~~k~I~lgiTGs~aa~~k~~~ll~~-L~-----~~g~eV~vv~T~~A   46 (201)
T 3lqk_A            5 FAGKHVGFGLTGSHCTYHEVLPQMER-LV-----ELGAKVTPFVTHTV   46 (201)
T ss_dssp             CTTCEEEEECCSCGGGGGGTHHHHHH-HH-----HTTCEEEEECSSCS
T ss_pred             cCCCEEEEEEEChHHHHHHHHHHHHH-Hh-----hCCCEEEEEEChhH
Confidence            35689999999997777 67788887 54     24788887765543

>1qzu_A Hypothetical protein MDS018; alpha-beta sandwich, lyase; HET: FMN; 2.91A {Homo sapiens} SCOP: c.34.1.1

Probab=87.02  E-value=0.67  Score=30.57  Aligned_cols=40  Identities=20%  Similarity=0.247  Sum_probs=29.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      .+.||++++|||....-...++++ |+    +..|.++.++.=..
T Consensus        18 ~~k~IllgvTGsiaa~k~~~lv~~-L~----~~~g~~V~vv~T~~   57 (206)
T 1qzu_A           18 RKFHVLVGVTGSVAALKLPLLVSK-LL----DIPGLEVAVVTTER   57 (206)
T ss_dssp             SSEEEEEEECSSGGGGTHHHHHHH-HC-------CEEEEEEECTG
T ss_pred             CCCEEEEEEeChHHHHHHHHHHHH-Hh----cccCCEEEEEECHh
Confidence            357999999999998888888887 54    21578887776553

>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=86.20  E-value=1.2  Score=29.07  Aligned_cols=41  Identities=22%  Similarity=0.137  Sum_probs=33.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..++|++|+.|...|.-.+..+.+ +.    +..+.++.++|+...
T Consensus       169 ~~~~Ilv~~d~s~~s~~al~~a~~-la----~~~~~~l~ll~v~~~  209 (294)
T 3loq_A          169 LFDRVLVAYDFSKWADRALEYAKF-VV----KKTGGELHIIHVSED  209 (294)
T ss_dssp             TTSEEEEECCSSHHHHHHHHHHHH-HH----HHHTCEEEEEEECSS
T ss_pred             cCCEEEEEECCCHHHHHHHHHHHH-Hh----hhcCCEEEEEEEccC
Confidence            458999999999999988888887 33    346789999999865

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

Probab=86.14  E-value=1.2  Score=29.34  Aligned_cols=41  Identities=22%  Similarity=0.147  Sum_probs=32.8

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +.++|+||+.|+..|..++....+ +.    +..+.++.++|+...
T Consensus       170 ~~~~Ilv~~D~s~~s~~al~~a~~-la----~~~~a~l~ll~v~~~  210 (309)
T 3cis_A          170 QQAPVLVGVDGSSASELATAIAFD-EA----SRRNVDLVALHAWSD  210 (309)
T ss_dssp             CCCCEEEECCSSHHHHHHHHHHHH-HH----HHTTCCEEEEEESCS
T ss_pred             CCCeEEEEeCCChHHHHHHHHHHH-HH----HhcCCEEEEEEEeec
Confidence            357899999999999888888877 32    356789999999754

>1sbz_A Probable aromatic acid decarboxylase; FMN binding, PAD1, UBIX, montreal-kingston bacterial structu genomics initiative, BSGI; HET: FMN; 2.00A {Escherichia coli} SCOP: c.34.1.1

Probab=85.64  E-value=1.7  Score=28.52  Aligned_cols=35  Identities=17%  Similarity=0.197  Sum_probs=27.1

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEE
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYI   46 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~v   46 (70)
                      ||++++|||.-..-...+++. |++    ..|.++.++.=
T Consensus         2 ~IllgvTGsiaa~k~~~ll~~-L~~----~~g~~V~vv~T   36 (197)
T 1sbz_A            2 KLIVGMTGATGAPLGVALLQA-LRE----MPNVETHLVMS   36 (197)
T ss_dssp             EEEEEECSSSCHHHHHHHHHH-HHT----CTTCEEEEEEC
T ss_pred             EEEEEEeChHHHHHHHHHHHH-HHh----ccCCEEEEEEC
Confidence            799999999988888888887 542    22778877643

>1mvl_A PPC decarboxylase athal3A; flavoprotein, active site mutant C175S; HET: FMN; 2.00A {Arabidopsis thaliana} SCOP: c.34.1.1 PDB: 1mvn_A* 1e20_A*

Probab=85.64  E-value=1.3  Score=29.32  Aligned_cols=36  Identities=25%  Similarity=0.282  Sum_probs=28.0

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      +.||+|++|||.-..-...++++ |+     +.+ ++.++.=.
T Consensus        19 ~k~IllgvTGsiaa~k~~~ll~~-L~-----~~g-~V~vv~T~   54 (209)
T 1mvl_A           19 KPRVLLAASGSVAAIKFGNLCHC-FT-----EWA-EVRAVVTK   54 (209)
T ss_dssp             CCEEEEEECSSGGGGGHHHHHHH-HH-----TTS-EEEEEECT
T ss_pred             CCEEEEEEeCcHHHHHHHHHHHH-Hh-----cCC-CEEEEEcc
Confidence            56999999999988888888887 54     235 77776554

>3mcu_A Dipicolinate synthase, B chain; NESG, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 2.30A {Bacillus cereus}

Probab=85.43  E-value=0.84  Score=30.27  Aligned_cols=41  Identities=15%  Similarity=0.148  Sum_probs=27.3

Q ss_pred             CCCCeEEEEecCchhHHH-HHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           3 RPQDKVLVAFSGSHSSMA-LLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~-Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      -.+.||++++|||.-..- ...+++. |++     .|.++.++.-...
T Consensus         3 l~~k~IllgiTGsiaayk~~~~ll~~-L~~-----~g~eV~vv~T~~A   44 (207)
T 3mcu_A            3 LKGKRIGFGFTGSHCTYEEVMPHLEK-LIA-----EGAEVRPVVSYTV   44 (207)
T ss_dssp             CTTCEEEEEECSCGGGGTTSHHHHHH-HHH-----TTCEEEEEECC--
T ss_pred             CCCCEEEEEEEChHHHHHHHHHHHHH-HHh-----CCCEEEEEEehHH
Confidence            356899999999964432 5677776 542     4788877765543

>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=84.77  E-value=2  Score=28.01  Aligned_cols=41  Identities=10%  Similarity=0.100  Sum_probs=32.0

Q ss_pred             CCCeEEEEecCchh-------HHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHS-------SMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~D-------S~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +.++|++|+.|+..       |.-++....+ +.    +..+.++.++|+...
T Consensus       133 ~~~~Ilva~D~s~~~~~~~~~s~~al~~a~~-la----~~~~a~l~ll~v~~~  180 (290)
T 3mt0_A          133 TGGKILAAVDVGNNDGEHRSLHAGIISHAYD-IA----GLAKATLHVISAHPS  180 (290)
T ss_dssp             TTCEEEEEECTTCCSHHHHHHHHHHHHHHHH-HH----HHTTCEEEEEEEEC-
T ss_pred             CCCeEEEEECCCCcchhhhHHHHHHHHHHHH-HH----HHcCCeEEEEEEecC
Confidence            45899999999987       7777777776 32    356889999999865

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

Probab=84.43  E-value=1.5  Score=28.13  Aligned_cols=41  Identities=17%  Similarity=0.360  Sum_probs=31.5

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +.++|++|+.|+..|.-++....+ +.    +..+.++.++|+...
T Consensus       153 ~~~~ilv~~d~s~~~~~al~~a~~-la----~~~~a~l~ll~v~~~  193 (268)
T 3ab8_A          153 ELEGALLGYDASESAVRALHALAP-LA----RALGLGVRVVSVHED  193 (268)
T ss_dssp             CCCEEEEECCSCHHHHHHHHHHHH-HH----HHHTCCEEEEEECSS
T ss_pred             CCCEEEEEECCCHHHHHHHHHHHH-hh----hcCCCEEEEEEEcCc
Confidence            347999999999999888877766 32    235778999999754

>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=83.81  E-value=2.4  Score=25.42  Aligned_cols=41  Identities=20%  Similarity=0.207  Sum_probs=30.8

Q ss_pred             CCCeEEEEecCch---------hHHHHHHHHHHhhhhhhccc--CCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSH---------SSMALLHLLQEGMQLSSHKR--ILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~---------DS~~Ll~ll~~~l~~~~~~~--~~~~~~~v~vd~   48 (70)
                      ...+|+|++.|..         .|..++....+.+.    +.  .+.++.++|+..
T Consensus         4 ~~~~ILv~vD~s~~~~~~~~~~~s~~al~~a~~la~----~~~~~~a~l~ll~v~~   55 (175)
T 2gm3_A            4 EPTKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIV----RSNTSDFKILLLHVQV   55 (175)
T ss_dssp             -CEEEEEECCBCSSSCTTCBCHHHHHHHHHHHHHTT----TTCTTSEEEEEEEEEC
T ss_pred             CccEEEEEECCCcccccccccHHHHHHHHHHHHHhh----cccCCCCEEEEEEEee
Confidence            4579999999999         88888877776222    22  578999999964

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

Probab=82.25  E-value=1.8  Score=28.47  Aligned_cols=40  Identities=5%  Similarity=-0.003  Sum_probs=32.1

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ...+|+|++.|...|..++....+ +.    ++.+.++.++|+..
T Consensus        18 ~~~~ILv~~D~s~~s~~al~~A~~-lA----~~~~a~l~ll~v~~   57 (309)
T 3cis_A           18 SSLGIIVGIDDSPAAQVAVRWAAR-DA----ELRKIPLTLVHAVS   57 (309)
T ss_dssp             CTTEEEEECCSSHHHHHHHHHHHH-HH----HHHTCCEEEEEECC
T ss_pred             CCCeEEEEECCCHHHHHHHHHHHH-HH----HhcCCcEEEEEEec
Confidence            457999999999999988887776 33    35678999999865

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

Probab=82.06  E-value=1.3  Score=28.45  Aligned_cols=38  Identities=16%  Similarity=0.253  Sum_probs=30.4

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      .+|+|++.|...|..++....+ +.    ++.+.++.++|+-.
T Consensus         1 k~ILv~vD~s~~s~~al~~A~~-lA----~~~~a~l~ll~v~~   38 (268)
T 3ab8_A            1 MRILLATDGSPQARGAEALAEW-LA----YKLSAPLTVLFVVD   38 (268)
T ss_dssp             CCEEEECCSCGGGHHHHHHHHH-HH----HHHTCCEEEEEEEE
T ss_pred             CcEEEEcCCCHHHHHHHHHHHH-HH----HHhCCcEEEEEEec
Confidence            4799999999999988888776 33    34678999999853

---

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	70
d1vl2a1	168	c.26.2.1 (A:2-169) Argininosuccinate synthetase, N	1e-04
d1wy5a1	216	c.26.2.5 (A:1-216) TilS-like protein Aq_1887 {Aqui	1e-04
d1ni5a1	227	c.26.2.5 (A:0-226) tRNA-Ile-lysidine synthetase, T	6e-04
d1j20a1	165	c.26.2.1 (A:1-165) Argininosuccinate synthetase, N	7e-04

>d1vl2a1 c.26.2.1 (A:2-169) Argininosuccinate synthetase, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 168

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: Argininosuccinate synthetase, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 35.5 bits (80), Expect = 1e-04
 Identities = 8/23 (34%), Positives = 15/23 (65%)

Query: 5  QDKVLVAFSGSHSSMALLHLLQE 27
          ++KV++A+SG   +  +L  L E
Sbjct: 1  KEKVVLAYSGGLDTSVILKWLCE 23

>d1wy5a1 c.26.2.5 (A:1-216) TilS-like protein Aq_1887 {Aquifex aeolicus [TaxId: 63363]} Length = 216

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]

 Score = 35.7 bits (81), Expect = 1e-04
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 1  MMRPQDKVLVAFSGSHSSMALLHLLQE 27
          +   + +VL+AFSG   S+ L  +L +
Sbjct: 20 IFSGERRVLIAFSGGVDSVVLTDVLLK 46

>d1ni5a1 c.26.2.5 (A:0-226) tRNA-Ile-lysidine synthetase, TilS, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 227

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]

 Score = 33.9 bits (76), Expect = 6e-04
 Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 4/44 (9%)

Query: 4  PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID 47
             ++LVAFSG   S  LLH L +       +    ++ AI++ 
Sbjct: 12 TSRQILVAFSGGLDSTVLLHQLVQ----WRTENPGVALRAIHVH 51

>d1j20a1 c.26.2.1 (A:1-165) Argininosuccinate synthetase, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 165

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: Argininosuccinate synthetase, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 33.6 bits (75), Expect = 7e-04
 Identities = 7/21 (33%), Positives = 14/21 (66%)

Query: 7  KVLVAFSGSHSSMALLHLLQE 27
          K+++A+SG   +  +L  L+E
Sbjct: 2  KIVLAYSGGLDTSIILKWLKE 22

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	70
d1wy5a1	216	TilS-like protein Aq_1887 {Aquifex aeolicus [TaxId	99.54
d1ni5a1	227	tRNA-Ile-lysidine synthetase, TilS, N-terminal dom	99.52
d1k92a1	188	Argininosuccinate synthetase, N-terminal domain {E	99.5
d1vl2a1	168	Argininosuccinate synthetase, N-terminal domain {T	99.43
d1j20a1	165	Argininosuccinate synthetase, N-terminal domain {T	99.4
d2c5sa1	218	Thiamine biosynthesis protein ThiI, C-terminal dom	99.25
d1zuna1	211	Sulfate adenylyltransferase subunit 2, CysD {Pseud	99.13
d1gpma1	197	GMP synthetase, central domain {Escherichia coli [	98.86
d1sura_	215	Phosphoadenylyl sulphate (PAPS) reductase {Escheri	98.79
d2pg3a1	230	Queuosine biosynthesis protein QueC {Erwinia carot	98.6
d1xnga1	255	NH3-dependent NAD+-synthetase {Helicobacter pylori	98.01
d2d13a1	226	Hypothetical protein PH1257 {Archaeon Pyrococcus h	97.78
d1kqpa_	271	NH3-dependent NAD+-synthetase {Bacillus subtilis [	97.1
d1wxia1	274	NH3-dependent NAD+-synthetase {Escherichia coli [T	96.99
d1q15a1	296	beta-Lactam synthetase {Pectobacterium carotovorum	96.9
d1jgta1	299	beta-Lactam synthetase {Streptomyces clavuligerus	96.58
d1ct9a1	324	Asparagine synthetase B, C-terminal domain {Escher	95.97
d1vbka1	132	Hypothetical protein PH1313, C-terminal domain {Ar	94.43
d1mjha_	160	"Hypothetical" protein MJ0577 {Archaeon Methanococ	94.1
d2z3va1	135	Hypothetical protein TTHA0895 {Thermus thermophilu	92.68
d1jmva_	140	Universal stress protein A, UspA {Haemophilus infl	92.47
d1iiba_	103	Enzyme IIB-cellobiose {Escherichia coli [TaxId: 56	91.03
d1p3y1_	183	MrsD {Bacillus sp. hil-y85/54728 [TaxId: 69002]}	90.35
d1q77a_	138	Hypothetical protein Aq_178 {Aquifex aeolicus [Tax	89.37
d1sbza_	186	Probable aromatic acid decarboxylase Pad1 {Escheri	89.22
d1g5qa_	174	Epidermin modifying enzyme (peptidyl-cysteine deca	85.12
d1tq8a_	147	Hypothetical protein Rv1636 {Mycobacterium tubercu	84.52
d1qzua_	181	4'-phosphopantothenoylcysteine decarboxylase (PPC	82.75
d1dv5a_	80	apo-D-alanyl carrier protein {Lactobacillus casei	81.16

>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=99.54  E-value=3.6e-15  Score=97.94  Aligned_cols=51  Identities=20%  Similarity=0.335  Sum_probs=41.5

Q ss_pred             CCCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCc-eEEEEEEeCCCCCcCccc
Q psy3866           1 MMRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILF-SVCAIYIDDGSISQVSKS   57 (70)
Q Consensus         1 ~i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~-~~~~v~vd~~~~~~~~~~   57 (70)
                      |+++++||+||+|||+||++||++|.+ ++    ...+. .+.++||||++ ++++.+
T Consensus        20 l~~~~~kv~Va~SGG~DS~~Ll~lL~~-~~----~~~~~~~i~~~~vdh~~-r~~s~~   71 (216)
T d1wy5a1          20 IFSGERRVLIAFSGGVDSVVLTDVLLK-LK----NYFSLKEVALAHFNHML-RESAER   71 (216)
T ss_dssp             SCSSCCEEEEECCSSHHHHHHHHHHHH-ST----TTTTCSEEEEEEEECCS-STHHHH
T ss_pred             ccCCCCeEEEEeCCcHHHHHHHHHHHH-HH----HhcCCCcEEEEEeeccc-ccchhh
Confidence            678999999999999999999999998 43    34554 68999999998 444443

>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=99.52  E-value=6.5e-15  Score=96.64  Aligned_cols=51  Identities=29%  Similarity=0.305  Sum_probs=41.8

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcCcccc
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQVSKSK   58 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~~~~~   58 (70)
                      .+.+||+||+|||+||++||+++.++..    +..++++.++|||||+ ++.|+++
T Consensus        11 ~~~kkvlva~SGG~DS~~Ll~ll~~~~~----~~~~~~l~~~~vdh~~-r~~s~~~   61 (227)
T d1ni5a1          11 LTSRQILVAFSGGLDSTVLLHQLVQWRT----ENPGVALRAIHVHHGL-SANADAW   61 (227)
T ss_dssp             TTCSEEEEECCSBHHHHHHHHHHHHHHT----TSTTCEEEEEEECCSC-CSSHHHH
T ss_pred             CCCCcEEEEecCcHHHHHHHHHHHHHHH----hCCCceEEEEEeCCCC-Ccchhhh
Confidence            4678999999999999999999998432    3468999999999998 4455443

>d1k92a1 c.26.2.1 (A:1-188) Argininosuccinate synthetase, 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: N-type ATP pyrophosphatases
domain: Argininosuccinate synthetase, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.50  E-value=2.3e-14  Score=87.29  Aligned_cols=44  Identities=18%  Similarity=0.154  Sum_probs=38.2

Q ss_pred             CCCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCCcC
Q psy3866           2 MRPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSISQV   54 (70)
Q Consensus         2 i~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~~~   54 (70)
                      +..++||+||||||+||+|||++|++         .|+++.++|++.+.+...
T Consensus         7 ~~~gkKv~vA~SGGvDSsvll~lL~~---------~g~~v~~~~~~~~~~~~~   50 (188)
T d1k92a1           7 LPVGQRIGIAFSGGLDTSAALLWMRQ---------KGAVPYAYTANLGQPDEE   50 (188)
T ss_dssp             CCTTSEEEEECCSSHHHHHHHHHHHH---------TTCEEEEEEEECCCTTCS
T ss_pred             CCCCCEEEEEeCCCHHHHHHHHHHHH---------cCCcCeEEeeecCCCchH
Confidence            34678999999999999999999986         589999999999985543

>d1vl2a1 c.26.2.1 (A:2-169) Argininosuccinate synthetase, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

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: Argininosuccinate synthetase, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.43  E-value=8e-14  Score=83.29  Aligned_cols=38  Identities=32%  Similarity=0.430  Sum_probs=34.6

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .+||+||+|||+||++|+++|.+         .++++.++|++++..
T Consensus         1 K~KIvvalSGGvDS~vl~~lL~~---------~~~~v~a~~~~~~~~   38 (168)
T d1vl2a1           1 KEKVVLAYSGGLDTSVILKWLCE---------KGFDVIAYVANVGQK   38 (168)
T ss_dssp             CCEEEEECCSSHHHHHHHHHHHH---------TTCEEEEEEEESSCC
T ss_pred             CCEEEEEeccHHHHHHHHHHHHH---------cCCeEEEEEcccCCC
Confidence            47999999999999999999986         578999999999973

>d1j20a1 c.26.2.1 (A:1-165) Argininosuccinate synthetase, N-terminal domain {Thermus thermophilus [TaxId: 274]}

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: Argininosuccinate synthetase, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.40  E-value=9.6e-14  Score=82.50  Aligned_cols=36  Identities=31%  Similarity=0.425  Sum_probs=33.1

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      ||+||+|||+||++||++|++        .+++++.++|++++.
T Consensus         2 KvlvA~SGG~DS~vll~lL~e--------~~~~~vi~~~~~~~~   37 (165)
T d1j20a1           2 KIVLAYSGGLDTSIILKWLKE--------TYRAEVIAFTADIGQ   37 (165)
T ss_dssp             EEEEECCSSHHHHHHHHHHHH--------HHTCEEEEEEEESSC
T ss_pred             EEEEEEeCHHHHHHHHHHHHH--------cCCCEEEEEEeccCC
Confidence            799999999999999999987        458999999999986

>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=99.25  E-value=5.3e-12  Score=80.32  Aligned_cols=39  Identities=26%  Similarity=0.152  Sum_probs=34.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      .+.|++|+||||+||+++++++.+         .|+++.++|+|++..
T Consensus         3 ~~gKvvv~~SGG~DS~vla~ll~k---------~g~~v~av~~~~~~~   41 (218)
T d2c5sa1           3 VGGKVMVLLSGGIDSPVAAYLTMK---------RGVSVEAVHFHSPPF   41 (218)
T ss_dssp             TTEEEEEECCSSSHHHHHHHHHHH---------BTEEEEEEEEECTTT
T ss_pred             CCCEEEEEecCcHHHHHHHHHHHH---------cCCeEEEEEEeCCCc
Confidence            456999999999999999999875         479999999999964

>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=99.13  E-value=1.4e-11  Score=75.80  Aligned_cols=44  Identities=16%  Similarity=0.129  Sum_probs=35.4

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSIS   52 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~~   52 (70)
                      ..++|+|+|||||||+|||+++.+..     ++.+.++.++++|++...
T Consensus        25 ~~d~i~va~SGGKDS~vlL~L~~~~~-----~~~~~~~~~v~~d~~~~~   68 (211)
T d1zuna1          25 EFDNPVMLYSIGKDSAVMLHLARKAF-----FPGKLPFPVMHVDTRWKF   68 (211)
T ss_dssp             HCSSEEEECCSSHHHHHHHHHHHHHH-----TTSCCSSCEEEECCSCCC
T ss_pred             hcCCEEEEeCCcHHHHHHHHHHHhhc-----ccccCCeeEEEecCcccc
Confidence            46889999999999999999998722     345566778999999743

>d1gpma1 c.26.2.1 (A:208-404) GMP synthetase, central 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: N-type ATP pyrophosphatases
domain: GMP synthetase, central domain
species: Escherichia coli [TaxId: 562]

Probab=98.86  E-value=1.1e-09  Score=67.05  Aligned_cols=38  Identities=29%  Similarity=0.482  Sum_probs=31.7

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .++|+||+|||+||+++++++.+        ..+....+++++++.
T Consensus        20 ~~kvvV~lSGGVDSsv~a~ll~~--------~~g~~~~~~~~~~~~   57 (197)
T d1gpma1          20 DDKVILGLSGGVDSSVTAMLLHR--------AIGKNLTCVFVDNGL   57 (197)
T ss_dssp             TCEEEEECCSSHHHHHHHHHHHH--------HHGGGEEEEEEECSC
T ss_pred             CCcEEEEcCCCHHHHHHHHHHHH--------hcCceeeeeeccccc
Confidence            57999999999999999999987        246777777887665

>d1sura_ c.26.2.2 (A:) Phosphoadenylyl sulphate (PAPS) reductase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: PAPS reductase-like
domain: Phosphoadenylyl sulphate (PAPS) reductase
species: Escherichia coli [TaxId: 562]

Probab=98.79  E-value=2.2e-09  Score=69.44  Aligned_cols=38  Identities=21%  Similarity=0.248  Sum_probs=33.2

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +++++|++|||+||+|+||++.+         .+.++.++|+|+|+.
T Consensus        44 ~~~v~vs~SgGkDS~vllhl~~~---------~~~~~~vvf~DTg~~   81 (215)
T d1sura_          44 PGEYVLSSSFGIQAAVSLHLVNQ---------IRPDIPVILTDTGYL   81 (215)
T ss_dssp             CSEEEEECCCCTTHHHHHHHHHH---------HSTTCEEEEEECSCB
T ss_pred             CCCEEEEecCChHHHHHHHHHHh---------cCCCccEEEEECCcC
Confidence            47999999999999999999997         245678999999974

>d2pg3a1 c.26.2.1 (A:1-230) Queuosine biosynthesis protein QueC {Erwinia carotovora [TaxId: 554]}

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: Queuosine biosynthesis protein QueC
species: Erwinia carotovora [TaxId: 554]

Probab=98.60  E-value=2.5e-08  Score=63.66  Aligned_cols=37  Identities=27%  Similarity=0.276  Sum_probs=32.8

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGSI   51 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~~   51 (70)
                      +|+++.+|||.||+++++++.+         -|.++.+||+|.|.+
T Consensus         2 kK~Vvl~SGGlDS~v~a~~l~~---------~g~~v~~v~~~ygqr   38 (230)
T d2pg3a1           2 KRAVVVFSGGQDSTTCLIQALQ---------DYDDVHCITFDYGQR   38 (230)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHH---------HCSEEEEEEEESSSS
T ss_pred             CeEEEEcCCcHHHHHHHHHHHH---------cCCeEEEEEEECCCc
Confidence            5899999999999999999886         267999999998863

>d1xnga1 c.26.2.1 (A:3-257) NH3-dependent NAD+-synthetase {Helicobacter pylori [TaxId: 210]}

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: NH3-dependent NAD+-synthetase
species: Helicobacter pylori [TaxId: 210]

Probab=98.01  E-value=2e-06  Score=56.87  Aligned_cols=38  Identities=21%  Similarity=0.153  Sum_probs=31.1

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .++|+||+|||.||++++.++.+.        .+-++.+++++.+.
T Consensus        23 ~k~vvvglSGGVDSsv~A~L~~~a--------~~~~v~~v~mp~~~   60 (255)
T d1xnga1          23 FKKVVYGLSGGLDSAVVGVLCQKV--------FKENAHALLMPSSV   60 (255)
T ss_dssp             CCCEEEECCSSHHHHHHHHHHHHH--------HGGGEEEEECCCSS
T ss_pred             CCeEEEECCCCHHHHHHHHHHHHH--------hhhhcchhcCcchh
Confidence            479999999999999999888761        23468899998776

>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=97.78  E-value=1.5e-05  Score=52.53  Aligned_cols=33  Identities=21%  Similarity=0.128  Sum_probs=26.5

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEE-EEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVC-AIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~-~v~vd   47 (70)
                      .+|+|.|||||||+..++.+.+         .|+++. ++++.
T Consensus         4 ~~V~vl~SGGKDS~lAl~~a~~---------~G~eV~~L~t~~   37 (226)
T d2d13a1           4 ADVAVLYSGGKDSNYALYWALK---------SGLRVRYLVSMV   37 (226)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHH---------TTCEEEEEEEEE
T ss_pred             eeEEEEecCcHHHHHHHHHHHH---------cCCeeEEEEEEe
Confidence            5899999999999999988775         367776 45554

>d1kqpa_ c.26.2.1 (A:) NH3-dependent NAD+-synthetase {Bacillus subtilis [TaxId: 1423]}

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: NH3-dependent NAD+-synthetase
species: Bacillus subtilis [TaxId: 1423]

Probab=97.10  E-value=0.00046  Score=45.97  Aligned_cols=45  Identities=16%  Similarity=0.114  Sum_probs=30.4

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccC-CceEEEEEEeCC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRI-LFSVCAIYIDDG   49 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~-~~~~~~v~vd~~   49 (70)
                      ...+++|++|||.||.+.+.++...+.. .+... ..++.++.+-+.
T Consensus        37 g~~gvvvglSGGIDSAv~a~L~~~A~~~-~~~~~g~~~v~~v~mP~~   82 (271)
T d1kqpa_          37 GAKGFVLGISGGQDSTLAGRLAQLAVES-IREEGGDAQFIAVRLPHG   82 (271)
T ss_dssp             TCCEEEEECCSSHHHHHHHHHHHHHHHH-HHHTTCCCEEEEEECCSS
T ss_pred             CCCeEEEECCCCHHHHHHHHHHHHHHHH-HHHhcCCceeeeeecCcc
Confidence            3578999999999999998887764432 12222 345667666544

>d1wxia1 c.26.2.1 (A:2-275) NH3-dependent NAD+-synthetase {Escherichia coli [TaxId: 562]}

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: NH3-dependent NAD+-synthetase
species: Escherichia coli [TaxId: 562]

Probab=96.99  E-value=0.00024  Score=47.50  Aligned_cols=44  Identities=16%  Similarity=0.157  Sum_probs=29.6

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhh--cccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSS--HKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~--~~~~~~~~~~v~vd~~   49 (70)
                      +.|+|++|||.||++.+.++.+-+....  ...-+.++.++....+
T Consensus        40 k~vVvGlSGGIDSav~A~L~~~Alg~~~v~~g~~~~~~i~v~mp~~   85 (274)
T d1wxia1          40 KSLVLGISGGQDSTLAGKLCQMAINELRLETGNESLQFIAVRLPYG   85 (274)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHHHHHHHHHHHCCTTCEEEEEECCSS
T ss_pred             CeEEEECCCCHHHHHHHHHHHHHHHHHhhhhccccceEEEEecCCc
Confidence            5799999999999999999887443210  0223456666665443

>d1q15a1 c.26.2.1 (A:206-501) beta-Lactam synthetase {Pectobacterium carotovorum [TaxId: 554]}

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: beta-Lactam synthetase
species: Pectobacterium carotovorum [TaxId: 554]

Probab=96.90  E-value=0.0005  Score=45.79  Aligned_cols=36  Identities=19%  Similarity=0.140  Sum_probs=27.7

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ..++|-+.+|||.||++++.++.+         ...++.+.++..
T Consensus        32 ~~~~VGv~LSGGlDSslia~~~~~---------~~~~~~tfs~~~   67 (296)
T d1q15a1          32 RFDTVGIPLSGGLDSSLVTALASR---------HFKKLNTYSIGT   67 (296)
T ss_dssp             GCSEEEEECCSSHHHHHHHHHHTT---------TCSEEEEEEEEE
T ss_pred             CCCEEEEEccCcHHHHHHHHHHHh---------cCCCCceEEecc
Confidence            467899999999999999887764         234667777753

>d1jgta1 c.26.2.1 (A:210-508) beta-Lactam synthetase {Streptomyces clavuligerus [TaxId: 1901]}

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: beta-Lactam synthetase
species: Streptomyces clavuligerus [TaxId: 1901]

Probab=96.58  E-value=0.00065  Score=45.32  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=20.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHH
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQE   27 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~   27 (70)
                      ..+.+.+.+|||.||++++.++.+
T Consensus        31 ~~~~~gv~LSGGlDSs~iaa~~~~   54 (299)
T d1jgta1          31 PGDTPLVVLSGGIDSSGVAACAHR   54 (299)
T ss_dssp             TTCCCEEECCSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEccCHHHHHHHHHHHHH
Confidence            456677899999999999988876

>d1ct9a1 c.26.2.1 (A:193-516) Asparagine synthetase B, C-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: N-type ATP pyrophosphatases
domain: Asparagine synthetase B, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.0028  Score=41.76  Aligned_cols=26  Identities=15%  Similarity=0.050  Sum_probs=21.6

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhh
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGM   29 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l   29 (70)
                      ..-.|-+.+|||.||++++.++.+.+
T Consensus        33 sDvpig~~LSGGlDSs~Iaal~~~~~   58 (324)
T d1ct9a1          33 SDVPYGVLLSGGLDSSIISAITKKYA   58 (324)
T ss_dssp             CSSCEEEECCSSHHHHHHHHHHHHHC
T ss_pred             cCCcEEEEecchHHHHHHHHHHHHHH
Confidence            34568899999999999999998733

>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=94.43  E-value=0.045  Score=32.69  Aligned_cols=35  Identities=14%  Similarity=0.245  Sum_probs=30.5

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      ..|+++-+|||- |-+..+++.+         -|.++..+|++.+
T Consensus         4 ~Gk~l~LlSGGi-SpVAa~lmmk---------RG~~V~~v~f~~~   38 (132)
T d1vbka1           4 EGRMIGILHDEL-SALAIFLMMK---------RGVEVIPVYIGKD   38 (132)
T ss_dssp             TCEEEEECSSHH-HHHHHHHHHH---------BTCEEEEEEESCS
T ss_pred             CceEEEeecCCc-hHHHHHHHHH---------CCCEEEEEEEcCC
Confidence            468999999999 9999998885         4899999999765

>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=94.10  E-value=0.069  Score=30.69  Aligned_cols=37  Identities=14%  Similarity=0.042  Sum_probs=31.5

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      +|||||+.|+..|--++....+ +    .+..+.++.++||-
T Consensus         4 ~~ILvavD~s~~s~~al~~a~~-l----a~~~~a~l~llhV~   40 (160)
T d1mjha_           4 KKILYPTDFSETAEIALKHVKA-F----KTLKAEEVILLHVI   40 (160)
T ss_dssp             CEEEEECCSCHHHHHHHHHHHH-T----CCSSCCEEEEEEEE
T ss_pred             CeEEEEECCCHHHHHHHHHHHH-H----HHhcCCEEEEEEec
Confidence            6999999999999988888777 3    45788999999984

>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=92.68  E-value=0.16  Score=28.17  Aligned_cols=40  Identities=10%  Similarity=0.110  Sum_probs=33.0

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDGS   50 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~~   50 (70)
                      .+|+|++.|...|..++....+ +.    ++.+.++.++||-+..
T Consensus         2 k~Ilv~~D~s~~s~~a~~~a~~-~a----~~~~~~l~ll~V~~~~   41 (135)
T d2z3va1           2 KTILLAYDGSEHARRAAEVAKA-EA----EAHGARLIVVHAYEPV   41 (135)
T ss_dssp             CEEEEECCSSHHHHHHHHHHHH-HH----HHHTCEEEEEEEECCC
T ss_pred             CEEEEEECCCHHHHHHHHHHHH-HH----HHcCCEEEEEEEecCC
Confidence            6899999999999999988887 33    3577899999987653

>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=92.47  E-value=0.11  Score=29.04  Aligned_cols=39  Identities=28%  Similarity=0.215  Sum_probs=32.0

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeCC
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDDG   49 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~~   49 (70)
                      +||+||+.|...|-.++....+ +.    ++.+.++.++|+...
T Consensus         3 k~ILv~vD~s~~s~~al~~A~~-~a----~~~~~~v~~lhv~~~   41 (140)
T d1jmva_           3 KHILVAVDLSEESPILLKKAVG-IA----KRHDAKLSIIHVDVN   41 (140)
T ss_dssp             SEEEEEECCSTTHHHHHHHHHH-HH----HHHTCEEEEEEEEEC
T ss_pred             CeEEEEECCCHHHHHHHHHHHH-HH----HHcCCeEEEEEEeee
Confidence            7999999999999999988877 33    356789999998643

>d1iiba_ c.44.2.1 (A:) Enzyme IIB-cellobiose {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Phosphotyrosine protein phosphatases I-like
superfamily: PTS system IIB component-like
family: PTS system, Lactose/Cellobiose specific IIB subunit
domain: Enzyme IIB-cellobiose
species: Escherichia coli [TaxId: 562]

Probab=91.03  E-value=0.29  Score=27.68  Aligned_cols=25  Identities=12%  Similarity=0.157  Sum_probs=21.3

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhh
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQ   30 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~   30 (70)
                      .||++.++||..|..|+.-+++..+
T Consensus         2 k~IlL~C~~G~STs~l~~km~~~a~   26 (103)
T d1iiba_           2 KHIYLFSSAGMSTSLLVSKMRAQAE   26 (103)
T ss_dssp             EEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHHHH
Confidence            5899999999999999988887444

>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=90.35  E-value=0.11  Score=32.29  Aligned_cols=38  Identities=18%  Similarity=0.303  Sum_probs=27.7

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .++||+|++|||.-+.-+.+++++ |+     +.+.++.++.-.
T Consensus         5 ~~KkIllgvTGsiaa~k~~~l~~~-L~-----~~g~eV~vv~T~   42 (183)
T d1p3y1_           5 KDKKLLIGICGSISSVGISSYLLY-FK-----SFFKEIRVVMTK   42 (183)
T ss_dssp             GGCEEEEEECSCGGGGGTHHHHHH-HT-----TTSSEEEEEECH
T ss_pred             CCCEEEEEEeCHHHHHHHHHHHHH-HH-----HCCCeEEEEEEc
Confidence            467999999998776666777776 54     357787776544

>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=89.37  E-value=0.26  Score=27.09  Aligned_cols=39  Identities=5%  Similarity=0.020  Sum_probs=33.3

Q ss_pred             CCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           5 QDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         5 ~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      -.+||+|+-|..+|--++....+ +    .++.+.++.++|+-+
T Consensus         4 mk~ILv~~D~S~~s~~al~~A~~-~----a~~~~a~l~llhv~~   42 (138)
T d1q77a_           4 MKVLLVLTDAYSDCEKAITYAVN-F----SEKLGAELDILAVLE   42 (138)
T ss_dssp             CEEEEEEESTTCCCHHHHHHHHH-H----HTTTCCEEEEEEECH
T ss_pred             CCEEEEEEeCCHHHHHHHHHHHH-h----hhhccceEEEEEEcc
Confidence            36899999999999999998887 3    357889999999964

>d1sbza_ c.34.1.1 (A:) Probable aromatic acid decarboxylase Pad1 {Escherichia coli O157:H7 [TaxId: 83334]}

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: Probable aromatic acid decarboxylase Pad1
species: Escherichia coli O157:H7 [TaxId: 83334]

Probab=89.22  E-value=0.34  Score=29.65  Aligned_cols=35  Identities=17%  Similarity=0.235  Sum_probs=26.9

Q ss_pred             eEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEE
Q psy3866           7 KVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYI   46 (70)
Q Consensus         7 kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~v   46 (70)
                      ||+||+||+..+.....++++ |+    ++.+.++.++.-
T Consensus         2 rIllgITGas~a~~a~~ll~~-L~----~~~g~~V~vv~T   36 (186)
T d1sbza_           2 KLIVGMTGATGAPLGVALLQA-LR----EMPNVETHLVMS   36 (186)
T ss_dssp             EEEEEECSSSCHHHHHHHHHH-HH----TCTTCEEEEEEC
T ss_pred             EEEEEEccHHHHHHHHHHHHH-HH----HhcCCEEEEEEC
Confidence            799999999888888888887 44    245778776643

>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=85.12  E-value=0.44  Score=29.22  Aligned_cols=36  Identities=17%  Similarity=0.304  Sum_probs=28.4

Q ss_pred             CeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEe
Q psy3866           6 DKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYID   47 (70)
Q Consensus         6 ~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd   47 (70)
                      .||++++||+.-..-..+++++ |+     +.|.++.++.=.
T Consensus         3 ~kIll~vtGsiaa~k~~~li~~-L~-----~~g~~V~vv~T~   38 (174)
T d1g5qa_           3 GKLLICATASINVININHYIVE-LK-----QHFDEVNILFSP   38 (174)
T ss_dssp             SCEEEEECSCGGGGGHHHHHHH-HT-----TTBSCEEEEECG
T ss_pred             CeEEEEEECHHHHHHHHHHHHH-HH-----HCCCeEEEEEeh
Confidence            5799999999988888889887 55     357787766554

>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=84.52  E-value=1.4  Score=24.17  Aligned_cols=41  Identities=20%  Similarity=0.067  Sum_probs=29.4

Q ss_pred             CCCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEEeC
Q psy3866           3 RPQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYIDD   48 (70)
Q Consensus         3 ~~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~vd~   48 (70)
                      ....||+|++.|...|.-++....+ +.    +..+-.+.+.++..
T Consensus         3 ~~yk~ILv~vD~s~~s~~al~~A~~-la----~~~~~~~~~~~~~~   43 (147)
T d1tq8a_           3 SAYKTVVVGTDGSDSSMRAVDRAAQ-IA----GADAKLIIASAYLP   43 (147)
T ss_dssp             CCCCEEEEECCSSHHHHHHHHHHHH-HH----TTTSEEEEEEECCC
T ss_pred             cCCCEEEEEECCCHHHHHHHHHHHH-HH----hcCCCEEEEEEEec
Confidence            3568999999999999998888877 33    34455555555543

>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=82.75  E-value=0.68  Score=28.55  Aligned_cols=38  Identities=21%  Similarity=0.239  Sum_probs=27.0

Q ss_pred             CCCeEEEEecCchhHHHHHHHHHHhhhhhhcccCCceEEEEEE
Q psy3866           4 PQDKVLVAFSGSHSSMALLHLLQEGMQLSSHKRILFSVCAIYI   46 (70)
Q Consensus         4 ~~~kvlva~SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~~~v~v   46 (70)
                      +..+|+|++|||..-.=..+++++ |.    ++.|.++.++.-
T Consensus         3 ~k~~Ill~vtGSIAayk~~~lv~~-L~----~~~g~~V~vi~T   40 (181)
T d1qzua_           3 RKFHVLVGVTGSVAALKLPLLVSK-LL----DIPGLEVAVVTT   40 (181)
T ss_dssp             SSEEEEEEECSSGGGGTHHHHHHH-HC-------CEEEEEEEC
T ss_pred             CCCEEEEEEecHHHHHHHHHHHHH-HH----HHcCCEEEEEEC
Confidence            445799999999888777888877 43    346888877743

>d1dv5a_ a.28.1.3 (A:) apo-D-alanyl carrier protein {Lactobacillus casei [TaxId: 1582]}

class: All alpha proteins
fold: Acyl carrier protein-like
superfamily: ACP-like
family: apo-D-alanyl carrier protein
domain: apo-D-alanyl carrier protein
species: Lactobacillus casei [TaxId: 1582]

Probab=81.16  E-value=0.26  Score=26.17  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=18.6

Q ss_pred             cCchhHHHHHHHHHHhhhhhhcccCCceE
Q psy3866          13 SGSHSSMALLHLLQEGMQLSSHKRILFSV   41 (70)
Q Consensus        13 SGG~DS~~Ll~ll~~~l~~~~~~~~~~~~   41 (70)
                      .||.||+.+..++.+ +.    +++|.++
T Consensus        33 ~gglDSl~~vel~~~-ie----~~fgi~i   56 (80)
T d1dv5a_          33 TGLLDSMGTVQLLLE-LQ----SQFGVDA   56 (80)
T ss_dssp             TSSCCSHHHHHHHHH-HT----TTSCCCC
T ss_pred             cCCCCHHHHHHHHHH-HH----HHHCCCC
Confidence            488999999999998 54    4666653