Citrus Sinensis ID: 032234

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140----
Protein Sequence
MKVKKKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLAR
Secondary Structure (PSIPRED)
cHHHHHHccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHccccccEEccccHHHHHHccHHHHHHHHHHHHHcccccccHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHcccccccHHHHHHHHHHHHHHcccccEEccccEEHccc
Coil and Loop (DISEMBL)
mkvkkkaapsvvhdfkvrespdseLVEVIANEVLKRLEETFQSHNKDLVGVERhikqtepllctgsagvyilgiwgiggigktTIADAVFNKISEHfegsyfahnvrdaeetDRIKDLQKQLLYELLNDRNVRNVRFQLKNLAR
Flexible Loop (DISEMBL)
mkvkkkaapsvvhdfkvrespdselVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLyellndrnvrnvrfqlknlar
Low Complexity Region (SEG)
MKVKKKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYilgiwgiggigkttiADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLAR
Disordered region (IsUnstruct)
************************LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQ******
Disordered Region (DISOPRED)
MKVKKKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLA*
Disordered Region (DISEMBL)
**********VVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLAR
Disordered Region (DISPRO)
MKVKKKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLA*
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKVKKKAAPSVVHDFKVRESPDSELVEVIANEVxxxxxxxxxxxxxxxxxxxxxIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRFQLKNLAR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	144	2.2.26 [Sep-21-2011]
O82500	1095	Putative disease resistan	yes	no	0.75	0.098	0.412	3e-17
Q40392	1144	TMV resistance protein N	N/A	no	0.763	0.096	0.358	2e-14
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.875	0.096	0.312	3e-10
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.708	0.063	0.351	1e-09
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.562	0.042	0.357	3e-08
Q9FH83	1288	Probable WRKY transcripti	no	no	0.680	0.076	0.315	3e-07
Q9FL92	1372	Probable WRKY transcripti	no	no	0.736	0.077	0.289	1e-06
Q9SX38	857	Putative disease resistan	no	no	0.833	0.140	0.284	0.0002

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 70/114 (61%), Gaps = 6/114 (5%)

Query: 26  VEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTI 85
           +  I+ +VL++L  T      DLVG+E HI + E LLC  S GV I+GIWG  G+GKTTI
Sbjct: 162 ITTISKDVLEKLNATPSRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTI 221

Query: 86  ADAVFNKISEHFEGSYFAHNVRDAEETDRIKD------LQKQLLYELLNDRNVR 133
           A A++N+  E+F  S F  NVR++     + D      LQ++ L +LL+ +++R
Sbjct: 222 ARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLR 275

Arabidopsis thaliana (taxid: 3702)

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/120 (35%), Positives = 75/120 (62%), Gaps = 10/120 (8%)

Query: 18  RESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGI 77
           R+  D++ +  I +++  +L +   S+ +++VG++ H+++ E LL  G  GV I+GIWG+
Sbjct: 158 RDKTDADCIRQIVDQISSKLCKISLSYLQNIVGIDTHLEKIESLLEIGINGVRIMGIWGM 217

Query: 78  GGIGKTTIADAVFNKI------SEHFEGSYFAHNVRDAEETDR-IKDLQKQLLYELLNDR 130
           GG+GKTTIA A+F+ +      S  F+G+ F   ++D +E  R +  LQ  LL ELL ++
Sbjct: 218 GGVGKTTIARAIFDTLLGRMDSSYQFDGACF---LKDIKENKRGMHSLQNALLSELLREK 274

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Nicotiana glutinosa (taxid: 35889)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 76/131 (58%), Gaps = 5/131 (3%)

Query: 7   AAPSVVHDFKVRESP-DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTG 65
           AA +V+  + +R+ P ++ ++E +A +VL++   T      DLVG+E HI+  + +LC  
Sbjct: 142 AAVAVMAGYDLRKWPSEAAMIEELAEDVLRK-TMTPSDDFGDLVGIENHIEAIKSVLCLE 200

Query: 66  SAGVYIL-GIWGIGGIGKTTIADAVFNKISEHFEG-SYFAHNVRDAEETDRIK-DLQKQL 122
           S    I+ GIWG  GIGK+TI  A+++K+S  F   ++  +      +   +K   +K+L
Sbjct: 201 SKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITYKSTSGSDVSGMKLRWEKEL 260

Query: 123 LYELLNDRNVR 133
           L E+L  ++++
Sbjct: 261 LSEILGQKDIK 271

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score = 62.0 bits (149), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 59/108 (54%), Gaps = 6/108 (5%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           DSELVE I  +V  +L      +  + VG+   + + E LL      +  +GIWG+ GIG
Sbjct: 148 DSELVEEIVRDVYGKL------YPAERVGIYARLLEIEKLLYKQHRDIRSIGIWGMPGIG 201

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLND 129
           KTT+A AVFN +S  ++ S F  N  +A   + +  L K+ + ++L D
Sbjct: 202 KTTLAKAVFNHMSTDYDASCFIENFDEAFHKEGLHRLLKERIGKILKD 249

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score = 57.4 bits (137), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 50/84 (59%), Gaps = 3/84 (3%)

Query: 15  FKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGI 74
           + + +  +SEL++ I  + LK L     +   +++G++  +++   LLC  S  V  +GI
Sbjct: 786 YTLTDKSESELIDEIVRDALKVL---CSADKVNMIGMDMQVEEILSLLCIESLDVRSIGI 842

Query: 75  WGIGGIGKTTIADAVFNKISEHFE 98
           WG  GIGKTTIA+ +F KIS  +E
Sbjct: 843 WGTVGIGKTTIAEEIFRKISVQYE 866

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 60/114 (52%), Gaps = 16/114 (14%)

Query: 18  RESPDSELVEVIANEVLKRLEETFQSH-NKDLVGVERHIKQTEPLLCTGSAGVYILGIWG 76
           +E  DS LVE I  +V       +++H     +G+   + + E ++     G+  +GIWG
Sbjct: 127 KECSDSILVEEIVRDV-------YETHFYVGRIGIYSKLLEIENMVNKQPIGIRCVGIWG 179

Query: 77  IGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDR 130
           + GIGKTT+A AVF+++S  F+ S F          D  K + ++ LY LL ++
Sbjct: 180 MPGIGKTTLAKAVFDQMSSAFDASCFIE--------DYDKSIHEKGLYCLLEEQ 225

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 63/121 (52%), Gaps = 15/121 (12%)

Query: 10  SVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGV 69
           S VH  + +E  DS+LV+    +V ++L         + +G+   + + E ++      +
Sbjct: 111 SSVHHSR-KECSDSQLVKETVRDVYEKL------FYMERIGIYSKLLEIEKMINKQPLDI 163

Query: 70  YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLND 129
             +GIWG+ GIGKTT+A AVF+++S  F+   F          D  K +Q++ +Y LL +
Sbjct: 164 RCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIE--------DYTKAIQEKGVYCLLEE 215

Query: 130 R 130
           +
Sbjct: 216 Q 216

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 37/130 (28%), Positives = 69/130 (53%), Gaps = 10/130 (7%)

Query: 6   KAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQ---SHNKDLVGVERHIKQTEPLL 62
           K A S++ DF ++ES   E + +  ++ L+   ++F     HN  LVG+E+ +++    L
Sbjct: 124 KIAASML-DFGIKESMGREGLSL--SDSLREQRQSFPYVVEHN--LVGLEQSLEKLVNDL 178

Query: 63  CTGSAGVYILGIWGIGGIGKTTIADAVF--NKISEHFEGSYFAHNVRDAEETDRIKDLQK 120
            +G   + +  I G+GG+GKTT+A  +F  +K+  HF+   + +  +D       +D+  
Sbjct: 179 VSGGEKLRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAWVYVSQDCRRRHVWQDIFL 238

Query: 121 QLLYELLNDR 130
            L Y+  N R
Sbjct: 239 NLSYKDENQR 248

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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	144
255561496	876	TMV resistance protein N, putative [Rici	0.777	0.127	0.401	7e-20
356550897	970	PREDICTED: TMV resistance protein N-like	0.770	0.114	0.450	2e-19
193795967	282	NBS-coding resistance gene protein [Nico	0.805	0.411	0.422	8e-19
193795993	274	NBS-coding resistance gene protein [Nico	0.805	0.423	0.413	1e-18
255563218	838	phosphoprotein phosphatase [Ricinus comm	0.743	0.127	0.458	1e-18
193795973	273	NBS-coding resistance gene protein [Nico	0.805	0.424	0.413	1e-18
224133498	1187	tir-nbs-lrr resistance protein [Populus	0.812	0.098	0.423	1e-18
193795983	277	NBS-coding resistance gene protein [Nico	0.805	0.418	0.413	2e-18
193795995	278	NBS-coding resistance gene protein [Nico	0.805	0.417	0.413	2e-18
193795989	262	NBS-coding resistance gene protein [Nico	0.805	0.442	0.413	2e-18

>gi|255561496|ref|XP_002521758.1| TMV resistance protein N, putative [Ricinus communis] gi|223538971|gb|EEF40568.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  102 bits (253), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 79/112 (70%)

Query: 21  PDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGI 80
           P+S+L+E I  ++ K+L +T  SH+  LVG++  ++Q E +LC   + V I+G+WG+GGI
Sbjct: 159 PESKLIEEIVKDISKKLNQTSPSHSIGLVGIDSRLEQIESMLCLDMSDVRIIGVWGMGGI 218

Query: 81  GKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNV 132
           GKTT+A A+F++IS  +E SYF  NVR+  +   + +L+++L  ++L ++N+
Sbjct: 219 GKTTLAGAIFDQISAQYESSYFLGNVREQLKRCLLAELREKLFSKILEEKNL 270

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550897|ref|XP_003543819.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  100 bits (249), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 50/111 (45%), Positives = 75/111 (67%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           +SE ++ I  +VL++L   + +H K+LVGVE + ++ E LL  GS+ V ILGIWG+GGIG
Sbjct: 164 ESEFLKDIVKDVLRKLAPRYPNHRKELVGVEENYEKIESLLKIGSSKVRILGIWGMGGIG 223

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNV 132
           KTT+A A+++K+S  FEG  F  NVR+  +    K L+ +L  ELL + N+
Sbjct: 224 KTTLASALYDKLSPEFEGCCFLANVREESDKHGFKALRNKLFSELLENENL 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795967|gb|ACF22035.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 98.6 bits (244), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 49/116 (42%), Positives = 71/116 (61%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           + E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY +GIWG+GG+G
Sbjct: 23  EPECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYFVGIWGMGGVG 82

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN++++R   F
Sbjct: 83  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLRVASF 138

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795993|gb|ACF22048.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 98.2 bits (243), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 73/116 (62%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           ++E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY++GIWG+GG+G
Sbjct: 15  EAECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYLVGIWGMGGVG 74

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN+++++   F
Sbjct: 75  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLKVASF 130

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563218|ref|XP_002522612.1| phosphoprotein phosphatase [Ricinus communis] gi|223538088|gb|EEF39699.1| phosphoprotein phosphatase [Ricinus communis]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/109 (45%), Positives = 71/109 (65%), Gaps = 2/109 (1%)

Query: 21  PDSELVEVIANEVLKRLEETFQSHNKD--LVGVERHIKQTEPLLCTGSAGVYILGIWGIG 78
           P+S+L+E I + + +RL +TF  ++ D  LVG+   IK  E +LC  S  V ILGIWG+G
Sbjct: 159 PESKLIEEIVDHIWERLNQTFSYYHYDDGLVGINSRIKDIELILCLESKDVRILGIWGMG 218

Query: 79  GIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELL 127
           GIGKTTIA  +F++IS  FE   F  NVR+  E   +  LQ+++L +LL
Sbjct: 219 GIGKTTIASKIFDQISSQFERICFVANVREKLEKSTLDSLQQEILTKLL 267

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795973|gb|ACF22038.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 72/116 (62%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           ++E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY +GIWG+GG+G
Sbjct: 14  EAECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYFVGIWGMGGVG 73

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN+++++   F
Sbjct: 74  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLKVASF 129

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133498|ref|XP_002328057.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222837466|gb|EEE75845.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score = 97.4 bits (241), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/118 (42%), Positives = 76/118 (64%), Gaps = 1/118 (0%)

Query: 13  HDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYIL 72
           HD +  ES +S+ +EVI  ++L +L + F  H  +LVG++ H+++ E LL   +  V I+
Sbjct: 163 HDSRKIES-ESKFIEVIVEDILNKLCKIFPVHPTNLVGIDEHVRKIESLLDMETQDVRIV 221

Query: 73  GIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDR 130
           GIWG+GGIGKTTIA AV+NKI   FEG  F  NVR+  +   + DLQ++    +L+ +
Sbjct: 222 GIWGMGGIGKTTIARAVYNKICTKFEGFSFMANVREELKRRTVFDLQRRFFSRILDQK 279

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795983|gb|ACF22043.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 72/116 (62%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           ++E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY +GIWG+GG+G
Sbjct: 18  EAECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYFVGIWGMGGVG 77

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN+++++   F
Sbjct: 78  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLKVASF 133

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795995|gb|ACF22049.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 72/116 (62%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           ++E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY +GIWG+GG+G
Sbjct: 19  EAECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYFVGIWGMGGVG 78

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN+++++   F
Sbjct: 79  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLKVASF 134

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193795989|gb|ACF22046.1| NBS-coding resistance gene protein [Nicotiana tabacum]

 Score = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 71/116 (61%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           + E ++ I +E  + +  T  +  K LVGVE      E +L  GS GVY +GIWG+GG+G
Sbjct: 3   EPECIDRIVHEKFQNVHHTVSATEKYLVGVESRTGGVESMLKVGSGGVYFVGIWGMGGVG 62

Query: 82  KTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRNVRF 137
           KTT+A  +F+ IS  F+GS F  NVR+  +   IK LQK LL  +LN+++++   F
Sbjct: 63  KTTVARKIFDNISNQFQGSCFLANVREESKKHGIKHLQKTLLSRILNEKSLKVASF 118

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	144
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.777	0.124	0.254	1.6e-07
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.875	0.115	0.287	2.1e-07
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.875	0.103	0.286	2.4e-07
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.770	0.103	0.290	1e-05
TAIR|locus:2028681	1161	AT1G31540 [Arabidopsis thalian	0.777	0.096	0.284	1.1e-05
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.923	0.111	0.264	1.5e-05
TAIR|locus:2164486	1104	AT5G40910 [Arabidopsis thalian	0.770	0.100	0.276	1.7e-05
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.756	0.078	0.279	1.8e-05
TAIR|locus:2115870	1234	AT4G08450 [Arabidopsis thalian	0.770	0.089	0.308	3.2e-05
TAIR|locus:2162439	1008	AT5G22690 [Arabidopsis thalian	0.562	0.080	0.341	4.2e-05

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 1.6e-07, P = 1.6e-07
 Identities = 30/118 (25%), Positives = 61/118 (51%)

Query:    22 DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXXX 81
             +++L++ IA  +   L  T    + +LVG++ H+++ + LLC  S  V            
Sbjct:   160 EADLIDKIAMSISYELNSTLSRDSYNLVGIDNHMRELDSLLCLESTEVKMVGIWGPAGIG 219

Query:    82 XXXXADAVFNKISEHFEGSYFAHNVRDAEETDRIKD------LQKQLLYELLNDRNVR 133
                 A A+FN++SE+F+ + F  NV+ +  T  +        LQ+Q L E+++ ++++
Sbjct:   220 KTTIARALFNRLSENFQHTIFMENVKGSSRTSELDAYGFQLRLQEQFLSEVIDHKHMK 277

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 2.1e-07, P = 2.1e-07
 Identities = 38/132 (28%), Positives = 64/132 (48%)

Query:     8 APSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSA 67
             A +++ D       ++  +  I+ +VL++L  T      DLVG+E HI + E LLC  S 
Sbjct:   144 AANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRDFNDLVGMEAHIAKMESLLCLESQ 203

Query:    68 GVYXXXXXXXXXXXXXXXADAVFNKISEHFEGSYFAHNVRDAEETDRIKD------LQKQ 121
             GV                A A++N+  E+F  S F  NVR++     + D      LQ++
Sbjct:   204 GVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQQR 263

Query:   122 LLYELLNDRNVR 133
              L +LL+ +++R
Sbjct:   264 FLSKLLDQKDLR 275

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 2.4e-07, P = 2.4e-07
 Identities = 37/129 (28%), Positives = 63/129 (48%)

Query:     7 AAPSVVHDFKVRESPDSE--LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCT 64
             A+ S +  + V+E   SE  LV+ IA +  K+L +   S N+ LVG+E  +K  E LL  
Sbjct:   144 ASASNILGYVVKEISTSEAKLVDEIAVDTFKKLNDLAPSGNEGLVGIESRLKNLEKLLSW 203

Query:    65 GSAG-VYXXXXXXXXXXXXXXXADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLL 123
                  V+               AD ++ ++   F+GS F  N+R+      ++ L ++L 
Sbjct:   204 EDLDTVHIIGIVGMVGIGKTTLADCLYGRMRGQFDGSCFLTNIRENSGRSGLESLLQKLF 263

Query:   124 YELLNDRNV 132
               +LNDR++
Sbjct:   264 STVLNDRDL 272

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2175075 AT5G41750 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 1.0e-05, P = 1.0e-05
 Identities = 34/117 (29%), Positives = 55/117 (47%)

Query:    22 DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXXX 81
             ++++++ I  +V  +L  T     + +VG+E H+K+   LLC  S  V            
Sbjct:   160 EAKMIQKIVTDVSDKLNLTPSRDFEGMVGMEAHLKRLNSLLCLESDEVKMIGIWGPAGIG 219

Query:    82 XXXXADAVFNKISEHFEGSYFAHNVRD-----AEETDRIKDLQKQLLYELLNDRNVR 133
                 A  +FNKIS  F    F  N++      AE   ++  LQKQLL E+L   N++
Sbjct:   220 KTTIARTLFNKISSIFPFKCFMENLKGSIKGGAEHYSKLS-LQKQLLSEILKQENMK 275

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2028681 AT1G31540 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 35/123 (28%), Positives = 59/123 (47%)

Query:    22 DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXXX 81
             +++++E IAN+VL +L  T    +++LVG+E HI +   LL   S  V            
Sbjct:   157 EAKMIEEIANDVLGKLLLTTPKDSEELVGIEDHIAEMSLLLQLESKEVRMVGISGSSGIG 216

Query:    82 XXXXADAVFNKISEHFEGSYF--------AHNVRDAEETD--RIK-DLQKQLLYELLNDR 130
                 A A+F ++S HF+GS F        + N+      D   +K  LQ   L E+L  +
Sbjct:   217 KTTIARALFKRLSRHFQGSTFIDRAFVSYSRNIYSGANPDDPNMKLQLQGHFLSEILGKK 276

Query:   131 NVR 133
             +++
Sbjct:   277 DIK 279

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 36/136 (26%), Positives = 59/136 (43%)

Query:    12 VHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYX 71
             +  + ++   ++E +  I  E+LKRL   +       VG+   ++    LL  GS GV  
Sbjct:   155 ISGWDIKNRNEAECIADITREILKRLPCQYLHVPSYAVGLRSRLQHISSLLSIGSDGVRV 214

Query:    72 XXXXXXXXXXXXXXADAVFNKISEHFEGSYFAHNVRD-AEETDRIKDLQKQLLYELL--N 128
                           A   FN+ S  FEGS F  N R+ +++ +    LQ QLL ++L  N
Sbjct:   215 IVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREYSKKPEGRTHLQHQLLSDILRRN 274

Query:   129 DRNVRNVRFQLKNLAR 144
             D   + +   +K   R
Sbjct:   275 DIEFKGLDHAVKERFR 290

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2164486 AT5G40910 [Arabidopsis thaliana (taxid:3702)]

 Score = 114 (45.2 bits), Expect = 1.7e-05, P = 1.7e-05
 Identities = 31/112 (27%), Positives = 55/112 (49%)

Query:    22 DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXXX 81
             ++EL++ IA +V  +L  T     + +VG+E H+ + +  LC  S  V            
Sbjct:   159 EAELIQKIATDVSNKLNLTPSRDFEGMVGLEAHLTKLDSFLCLESDDVKMIGIWGPAGIG 218

Query:    82 XXXXADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVR 133
                 A A+FN++S  F  S F   + D  + D    LQ +LL ++LN ++++
Sbjct:   219 KTTIARALFNQLSTGFRLSCFMGTI-DVNDYDSKLCLQNKLLSKILNQKDMK 269

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 1.8e-05, P = 1.8e-05
 Identities = 31/111 (27%), Positives = 53/111 (47%)

Query:    18 RESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCT-GSAGVYXXXXXX 76
             ++S D +++E++   VL  L  T +   + +VG+E  +K    L+ T  S+GV       
Sbjct:   159 KDSKDDDMIELVVKRVLAELSNTPEKVGEFIVGLESPLKDLTGLIDTESSSGVQVLGLYG 218

Query:    77 XXXXXXXXXADAVFNKISEHFEGSYFAHNVRDAEETDR-IKDLQKQLLYEL 126
                      A A +NKI  +FE   F  ++R+    +  +  LQK L+ EL
Sbjct:   219 MGGIGKTTLAKAFYNKIVGNFEQRAFISDIRERSSAENGLVTLQKTLIKEL 269

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2115870 AT4G08450 [Arabidopsis thaliana (taxid:3702)]

 Score = 112 (44.5 bits), Expect = 3.2e-05, P = 3.2e-05
 Identities = 38/123 (30%), Positives = 58/123 (47%)

Query:    22 DSELVEVIANEVLKRLEETFQSHNKD-LVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXX 80
             +++L+E I N+VL +L +   S + D   G+E HIK+   LLC  S  V           
Sbjct:   154 EAKLIEEITNDVLDKLMKLTPSKDFDEFFGIEDHIKELSLLLCLESEEVRMVGIWGPTGI 213

Query:    81 XXXXXADAVFNKISEHFEGSYFAHNV---------RDAEETD-RIK-DLQKQLLYELLND 129
                  A A+FN+I  HF+G  F               A   D  +K  LQ++LL +LL+ 
Sbjct:   214 GKTTIARALFNRIYRHFQGRVFIDRAFISKSMAIYSRANSDDYNLKLHLQEKLLSKLLDK 273

Query:   130 RNV 132
             +N+
Sbjct:   274 KNL 276

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2162439 AT5G22690 [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 4.2e-05, P = 4.2e-05
 Identities = 28/82 (34%), Positives = 43/82 (52%)

Query:    22 DSELVEVIANEVLKRLEETFQSHN-KDLVGVERHIKQTEPLLCTGSAGVYXXXXXXXXXX 80
             ++ +VE IAN+VL +L  T  S++ +  VG+E HI +   +LC     V           
Sbjct:   157 EATMVEDIANDVLAKLNLTTTSNDFEGFVGIEGHIAKISLMLCLECKQVRMFGIWGPSGI 216

Query:    81 XXXXXADAVFNKISEHFEGSYF 102
                  A A+F++IS HF+GS F
Sbjct:   217 GKTTIARALFSRISRHFQGSVF 238

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	144
PLN03210	1153	PLN03210, PLN03210, Resistant to P	6e-18
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-06

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 78.8 bits (194), Expect = 6e-18
 Identities = 41/123 (33%), Positives = 72/123 (58%), Gaps = 11/123 (8%)

Query: 22  DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIG 81
           +++++E IAN+VL +L  T  +  +D VG+E HI +   LL   S  V ++GIWG  GIG
Sbjct: 160 EAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIG 219

Query: 82  KTTIADAVFNKISEHFEGSYF-----------AHNVRDAEETDRIKDLQKQLLYELLNDR 130
           KTTIA A+F+++S  F+ S F            ++  + ++ +    LQ+  L E+L+ +
Sbjct: 220 KTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKK 279

Query: 131 NVR 133
           +++
Sbjct: 280 DIK 282

syringae 6; Provisional. Length = 1153

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 44.6 bits (106), Expect = 4e-06
 Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 6/81 (7%)

Query: 51  VERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK--ISEHFEGSYFAHNVRD 108
            E  I+     L   S  + ++GI G+GG+GKTT+A  ++N   +  HF+   +    + 
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSK- 59

Query: 109 AEETDRIKDLQKQLLYELLND 129
              T     LQK +L EL  D
Sbjct: 60  ---TYTEFRLQKDILQELGLD 77

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	144
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.77
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.48
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.47
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.81
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.68
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.59
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.58
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.57
PTZ00202	550	tuzin; Provisional	98.52
PRK13342	413	recombination factor protein RarA; Reviewed	98.44
KOG2028	554	consensus ATPase related to the helicase subunit o	98.42
PRK09376	416	rho transcription termination factor Rho; Provisio	98.34
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.32
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.24
cd01128	249	rho_factor Transcription termination factor rho is	98.24
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.23
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.23
PRK08118	167	topology modulation protein; Reviewed	98.21
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.21
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.18
PRK12402	337	replication factor C small subunit 2; Reviewed	98.17
PLN03025	319	replication factor C subunit; Provisional	98.15
CHL00095	821	clpC Clp protease ATP binding subunit	98.14
PRK10865	857	protein disaggregation chaperone; Provisional	98.1
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.1
PRK13341	725	recombination factor protein RarA/unknown domain f	98.06
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.04
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.02
PRK04195	482	replication factor C large subunit; Provisional	98.01
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.0
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.0
TIGR00767	415	rho transcription termination factor Rho. Members	97.95
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.95
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.93
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.93
PHA02544	316	44 clamp loader, small subunit; Provisional	97.92
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.87
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.87
PRK06696	223	uridine kinase; Validated	97.86
PRK07261	171	topology modulation protein; Provisional	97.85
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.83
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.82
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.82
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.81
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.78
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.77
PRK07667	193	uridine kinase; Provisional	97.76
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.76
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.76
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.74
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.74
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.73
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.73
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.73
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.73
PF05729	166	NACHT: NACHT domain	97.72
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.72
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.71
PF00004	132	AAA: ATPase family associated with various cellula	97.71
PRK06893	229	DNA replication initiation factor; Validated	97.7
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.69
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.69
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.68
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.66
PRK05541	176	adenylylsulfate kinase; Provisional	97.65
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.64
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.63
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.63
smart00382	148	AAA ATPases associated with a variety of cellular	97.62
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.62
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.62
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.61
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.6
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.6
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.6
PRK12377	248	putative replication protein; Provisional	97.58
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.58
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.58
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.56
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.55
PTZ00301	210	uridine kinase; Provisional	97.55
PRK08727	233	hypothetical protein; Validated	97.54
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.54
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.52
PRK15455	644	PrkA family serine protein kinase; Provisional	97.52
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.52
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.52
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.5
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.5
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.49
PF13173	128	AAA_14: AAA domain	97.48
PRK05480	209	uridine/cytidine kinase; Provisional	97.48
PRK03839	180	putative kinase; Provisional	97.47
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.45
PRK08084	235	DNA replication initiation factor; Provisional	97.44
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.44
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.43
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.42
PRK08233	182	hypothetical protein; Provisional	97.42
PRK06217	183	hypothetical protein; Validated	97.42
PRK06762	166	hypothetical protein; Provisional	97.41
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.41
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.41
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.4
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.39
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.38
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.38
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.37
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.37
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.37
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.35
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.34
PRK00131	175	aroK shikimate kinase; Reviewed	97.34
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.34
PRK13947	171	shikimate kinase; Provisional	97.33
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.33
PRK05642	234	DNA replication initiation factor; Validated	97.32
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	97.32
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.32
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.31
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.31
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.28
PRK00625	173	shikimate kinase; Provisional	97.28
PRK04040	188	adenylate kinase; Provisional	97.28
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.26
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.26
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.25
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.25
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.24
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.24
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.24
PRK06526	254	transposase; Provisional	97.23
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.22
PRK08181	269	transposase; Validated	97.22
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.21
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.21
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.21
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.21
PRK06547	172	hypothetical protein; Provisional	97.21
CHL00181	287	cbbX CbbX; Provisional	97.21
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.2
PF07726	131	AAA_3: ATPase family associated with various cellu	97.19
PRK07952	244	DNA replication protein DnaC; Validated	97.19
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.18
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.18
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.17
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.17
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.17
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.17
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.17
PRK00889	175	adenylylsulfate kinase; Provisional	97.15
PRK14974	336	cell division protein FtsY; Provisional	97.15
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.15
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.15
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.15
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.15
PRK13765	637	ATP-dependent protease Lon; Provisional	97.14
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.14
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.14
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.12
PHA00729	226	NTP-binding motif containing protein	97.12
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.12
PRK13949	169	shikimate kinase; Provisional	97.11
PRK06921	266	hypothetical protein; Provisional	97.1
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.09
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.09
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.08
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.08
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.07
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.07
PRK06620	214	hypothetical protein; Validated	97.07
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.06
PRK03846	198	adenylylsulfate kinase; Provisional	97.06
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.05
PRK13946	184	shikimate kinase; Provisional	97.05
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.04
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.04
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.04
PRK04841	903	transcriptional regulator MalT; Provisional	97.04
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.03
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.02
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.01
PRK10416	318	signal recognition particle-docking protein FtsY;	97.01
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.0
CHL00176	638	ftsH cell division protein; Validated	96.99
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.99
PRK14530	215	adenylate kinase; Provisional	96.99
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.98
PRK08939	306	primosomal protein DnaI; Reviewed	96.98
PRK13531	498	regulatory ATPase RavA; Provisional	96.98
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.98
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.97
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.97
PRK04182	180	cytidylate kinase; Provisional	96.96
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.96
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.95
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.94
PRK08116	268	hypothetical protein; Validated	96.94
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.94
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.93
PRK05439	311	pantothenate kinase; Provisional	96.93
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.93
PRK09183	259	transposase/IS protein; Provisional	96.92
PRK00300	205	gmk guanylate kinase; Provisional	96.92
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.92
PRK10865	857	protein disaggregation chaperone; Provisional	96.91
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.91
PRK06835	329	DNA replication protein DnaC; Validated	96.91
PRK13975	196	thymidylate kinase; Provisional	96.9
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.89
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.88
PRK13948	182	shikimate kinase; Provisional	96.88
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.88
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.87
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.87
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.87
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.86
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.86
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.86
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.86
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.85
PRK05057	172	aroK shikimate kinase I; Reviewed	96.85
PRK03731	171	aroL shikimate kinase II; Reviewed	96.84
COG3899	849	Predicted ATPase [General function prediction only	96.84
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.84
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.84
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.83
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.83
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.83
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.82
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.82
PRK14738	206	gmk guanylate kinase; Provisional	96.82
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.81
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.81
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.8
PLN02318	656	phosphoribulokinase/uridine kinase	96.8
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.8
PF13245	76	AAA_19: Part of AAA domain	96.78
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.78
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	96.78
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.78
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.77
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.77
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.76
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.76
PRK14527	191	adenylate kinase; Provisional	96.76
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.75
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.75
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.75
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.75
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	96.74
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.74
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.74
CHL00095	821	clpC Clp protease ATP binding subunit	96.74
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.73
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.71
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.71
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.71
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.7
PLN02200	234	adenylate kinase family protein	96.7
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.7
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.69
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.68
PRK13768	253	GTPase; Provisional	96.68
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.68
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.68
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.68
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.67
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.66
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.66
PRK15453	290	phosphoribulokinase; Provisional	96.66
PRK14532	188	adenylate kinase; Provisional	96.65
PLN02348	395	phosphoribulokinase	96.64
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.64
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.64
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.64
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.63
PRK09087	226	hypothetical protein; Validated	96.62
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.62
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.62
PRK12422	445	chromosomal replication initiation protein; Provis	96.61
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.61
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.61
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.61
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.6
PHA02530	300	pseT polynucleotide kinase; Provisional	96.6
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.6
PRK10867	433	signal recognition particle protein; Provisional	96.59
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.59
PRK06067	234	flagellar accessory protein FlaH; Validated	96.58
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.58
PRK08356	195	hypothetical protein; Provisional	96.57
cd03116	159	MobB Molybdenum is an essential trace element in t	96.57
PRK14531	183	adenylate kinase; Provisional	96.57
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.56
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.55
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.55
PHA02244	383	ATPase-like protein	96.55
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.55
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.54
PRK06761	282	hypothetical protein; Provisional	96.54
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.54
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.53
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.53
PRK00698	205	tmk thymidylate kinase; Validated	96.53
PRK09825	176	idnK D-gluconate kinase; Provisional	96.53
PRK14737	186	gmk guanylate kinase; Provisional	96.52
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.52
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.52
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.51
PRK01184	184	hypothetical protein; Provisional	96.5
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.5
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	96.5
PRK13695	174	putative NTPase; Provisional	96.49
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.49
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.49
COG0714	329	MoxR-like ATPases [General function prediction onl	96.49
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.49
PRK10536	262	hypothetical protein; Provisional	96.48
cd03114	148	ArgK-like The function of this protein family is u	96.48
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.48
COG1100	219	GTPase SAR1 and related small G proteins [General	96.48
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.47
PTZ00088	229	adenylate kinase 1; Provisional	96.47
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.47
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	96.45
PLN02796	347	D-glycerate 3-kinase	96.45
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.45
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.45
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.44
PRK02496	184	adk adenylate kinase; Provisional	96.42
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.42
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.42
TIGR00101	199	ureG urease accessory protein UreG. This model rep	96.41
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.41
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.41
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.41
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.4
PRK00279	215	adk adenylate kinase; Reviewed	96.38
cd02117	212	NifH_like This family contains the NifH (iron prot	96.38
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.37
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.37
CHL00195	489	ycf46 Ycf46; Provisional	96.37
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.36
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.36
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.35
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.34
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	96.34
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.32
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.31
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.31
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.31
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.31
cd02034	116	CooC The accessory protein CooC, which contains a	96.3
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	96.3
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.3
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.29
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.28
PRK07429	327	phosphoribulokinase; Provisional	96.28
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.28
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.27
PRK13236	296	nitrogenase reductase; Reviewed	96.27
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	96.27
cd02040	270	NifH NifH gene encodes component II (iron protein)	96.27
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.26
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.26
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.25
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.25
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.25
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.25
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.25
PRK14528	186	adenylate kinase; Provisional	96.25
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.25
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	96.25
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.25
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.24
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.24
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.24
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.23
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.23
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.23
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.22
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	96.22
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.22
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.22
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.21
PRK04328	249	hypothetical protein; Provisional	96.21
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.21
PRK09354	349	recA recombinase A; Provisional	96.2
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.2
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.2
PRK12338	319	hypothetical protein; Provisional	96.19
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.18
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	96.18
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.18
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.18
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.17
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.17
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.16
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.16
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.16
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.16
PRK13232	273	nifH nitrogenase reductase; Reviewed	96.16
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.16
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.15
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.14
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.14
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.13
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.13
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.13
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	96.13
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.13
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.13
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.12
PRK13233	275	nifH nitrogenase reductase; Reviewed	96.12
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.12
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	96.12
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	96.11
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.11
PRK14730	195	coaE dephospho-CoA kinase; Provisional	96.11
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.1
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.1
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	96.1
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.1
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.09
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.09
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.09
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.09
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.09
PRK13973	213	thymidylate kinase; Provisional	96.09
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.08
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.08
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.07
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.06
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	96.06
PLN02165	334	adenylate isopentenyltransferase	96.06
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	96.05
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.05
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.05
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.05
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	96.04
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.04
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.04
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.04
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.04
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.03
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.03
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.03
PLN03046	460	D-glycerate 3-kinase; Provisional	96.03
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.02
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.02
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.02
PRK14526	211	adenylate kinase; Provisional	96.02
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.02
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	96.02
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.02
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.01
cd02032	267	Bchl_like This family of proteins contains bchL an	96.01
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	96.01
PRK00023	225	cmk cytidylate kinase; Provisional	96.0
PRK05973	237	replicative DNA helicase; Provisional	96.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.0
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.0
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.0
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.99
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.99
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.98
PF13479	213	AAA_24: AAA domain	95.97
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.97
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.97
cd03246	173	ABCC_Protease_Secretion This family represents the	95.97
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.96
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.96
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.96
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.94
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.94
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.94
PRK10908	222	cell division protein FtsE; Provisional	95.93
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.93
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	95.93
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	95.93
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.92
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	95.92
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.92
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.92
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.92
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	95.92
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.91
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.91
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.91
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.91
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	95.91
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.91
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.9
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.9
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.9
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.9
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.89
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.89

>PLN03210 Resistant to P

Probab=99.77  E-value=4.7e-18  Score=153.17  Aligned_cols=125  Identities=34%  Similarity=0.513  Sum_probs=102.6

Q ss_pred             ccccCceeeeccccccchHHHHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHH
Q 032234            5 KKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTT   84 (144)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTt   84 (144)
                      .++|+.+|+++ .++.+|+++|++||++|++++..+++.+..++||++.+++++..++.....++++++||||||+||||
T Consensus       144 ~~~~~~~g~~~-~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTT  222 (1153)
T PLN03210        144 TDVANILGYHS-QNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTT  222 (1153)
T ss_pred             HHHhCcCceec-CCCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHH
Confidence            46889999988 45789999999999999999998888788899999999999999987777789999999999999999


Q ss_pred             HHHHHHHHhhccCCcEEEEccc--ccc---cc------hhhHHHHHHHHHHHhhCCC
Q 032234           85 IADAVFNKISEHFEGSYFAHNV--RDA---EE------TDRIKDLQKQLLYELLNDR  130 (144)
Q Consensus        85 La~~v~~~~~~~f~~~~~v~~~--~~~---s~------~~~~~~l~~~ll~~l~~~~  130 (144)
                      ||+++|+++..+|+..+|+...  +..   ..      ......++++++..+....
T Consensus       223 LA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~  279 (1153)
T PLN03210        223 IARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKK  279 (1153)
T ss_pred             HHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCC
Confidence            9999999999999999888531  111   10      1123456777777776554

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.48  E-value=2e-13  Score=105.53  Aligned_cols=75  Identities=31%  Similarity=0.495  Sum_probs=64.6

Q ss_pred             hHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH--hhccCCcEEEEcccccccchhhHHHHHHHHHHHhhC
Q 032234           51 VERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK--ISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLN  128 (144)
Q Consensus        51 r~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~--~~~~f~~~~~v~~~~~~s~~~~~~~l~~~ll~~l~~  128 (144)
                      ||.+++++.+.|...+.+.++|+|+||||+||||||..++++  +..+|+.++|+.    ++.......++..++..+..
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~----~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVS----LSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEE----EES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccc----cccccccccccccccccccc
Confidence            678899999988765678999999999999999999999997  788899999999    77666778888889888876


Q ss_pred             C
Q 032234          129 D  129 (144)
Q Consensus       129 ~  129 (144)
                      .
T Consensus        77 ~   77 (287)
T PF00931_consen   77 P   77 (287)
T ss_dssp             C
T ss_pred             c
Confidence            6

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.47  E-value=2.2e-13  Score=120.02  Aligned_cols=76  Identities=32%  Similarity=0.539  Sum_probs=68.3

Q ss_pred             cchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH---hhccCCcEEEEcccccccchhhHHHHHHHHHHH
Q 032234           49 VGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK---ISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYE  125 (144)
Q Consensus        49 vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~---~~~~f~~~~~v~~~~~~s~~~~~~~l~~~ll~~  125 (144)
                      ||.+..++++...|...+.  .++|||||||+||||||+.++|+   +..+|+..+|+.    ||+.+...+++.+|+..
T Consensus       161 VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~f~~~~iq~~Il~~  234 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFTTRKIQQTILER  234 (889)
T ss_pred             ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----EcccccHHhHHHHHHHH
Confidence            9999999999988864433  99999999999999999999994   567899999999    99999999999999998


Q ss_pred             hhCCC
Q 032234          126 LLNDR  130 (144)
Q Consensus       126 l~~~~  130 (144)
                      +....
T Consensus       235 l~~~~  239 (889)
T KOG4658|consen  235 LGLLD  239 (889)
T ss_pred             hccCC
Confidence            87643

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.81  E-value=1.5e-08  Score=76.68  Aligned_cols=63  Identities=22%  Similarity=0.365  Sum_probs=44.0

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhh---cCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLC---TGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE   98 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~---~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~   98 (144)
                      ...+++|..+   .+++|++..+..+.-++.   ...+....+-+||++|+||||||..+++....+|.
T Consensus        14 l~~~lRP~~L---~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~   79 (233)
T PF05496_consen   14 LAERLRPKSL---DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK   79 (233)
T ss_dssp             HHHHTS-SSC---CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE
T ss_pred             hHHhcCCCCH---HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE
Confidence            4456677766   899999998888765553   23456788999999999999999999999887774

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.68  E-value=8.2e-08  Score=69.24  Aligned_cols=50  Identities=30%  Similarity=0.426  Sum_probs=34.9

Q ss_pred             CccchHHHHHHHHHHhh-cCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           47 DLVGVERHIKQTEPLLC-TGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~-~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .|+||+++++.+...+. ......+.+-|+|++|+|||+|...++..+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999884 234457899999999999999999999987665

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.59  E-value=1e-07  Score=77.26  Aligned_cols=81  Identities=19%  Similarity=0.322  Sum_probs=55.1

Q ss_pred             HHHhhcccccCCCCCCccchHHHHH---HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEccccc
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIK---QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRD  108 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~---~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~  108 (144)
                      ....+++|...   .+++|++..+.   .+.+++  +..++..+.+||++|+||||||+.+.......|....=+     
T Consensus        13 PLA~rmRP~~l---de~vGQ~HLlg~~~~lrr~v--~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv-----   82 (436)
T COG2256          13 PLAERLRPKSL---DEVVGQEHLLGEGKPLRRAV--EAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAV-----   82 (436)
T ss_pred             ChHHHhCCCCH---HHhcChHhhhCCCchHHHHH--hcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccc-----
Confidence            45567777666   67777775542   244455  456788899999999999999999999888777654333     


Q ss_pred             ccchhhHHHHHHHH
Q 032234          109 AEETDRIKDLQKQL  122 (144)
Q Consensus       109 ~s~~~~~~~l~~~l  122 (144)
                      .+.-.++..+.++-
T Consensus        83 ~~gvkdlr~i~e~a   96 (436)
T COG2256          83 TSGVKDLREIIEEA   96 (436)
T ss_pred             cccHHHHHHHHHHH
Confidence            23334445555444

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.58  E-value=3.2e-07  Score=73.40  Aligned_cols=78  Identities=19%  Similarity=0.262  Sum_probs=53.1

Q ss_pred             CCCccchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC------cEEEEcccccccchhhHH
Q 032234           45 NKDLVGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE------GSYFAHNVRDAEETDRIK  116 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~------~~~~v~~~~~~s~~~~~~  116 (144)
                      +..++||+.+++.+..++..  .......+-|+|++|+|||++++.+++.+.....      ..+|+..    ....+..
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~----~~~~~~~   89 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNC----QILDTLY   89 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEEC----CCCCCHH
Confidence            46799999999999888753  1233457889999999999999999997653322      2344542    2223344


Q ss_pred             HHHHHHHHHh
Q 032234          117 DLQKQLLYEL  126 (144)
Q Consensus       117 ~l~~~ll~~l  126 (144)
                      .+...++.++
T Consensus        90 ~~~~~i~~~l   99 (365)
T TIGR02928        90 QVLVELANQL   99 (365)
T ss_pred             HHHHHHHHHH
Confidence            5555555555

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.57  E-value=6.3e-07  Score=72.48  Aligned_cols=81  Identities=19%  Similarity=0.198  Sum_probs=54.0

Q ss_pred             CCCCccchHHHHHHHHHHhhcC--CCCeEEEEEEccCCCchHHHHHHHHHHhhccC--CcEEEEcccccccchhhHHHHH
Q 032234           44 HNKDLVGVERHIKQTEPLLCTG--SAGVYILGIWGIGGIGKTTIADAVFNKISEHF--EGSYFAHNVRDAEETDRIKDLQ  119 (144)
Q Consensus        44 ~~~~~vGr~~~~~~l~~~l~~~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f--~~~~~v~~~~~~s~~~~~~~l~  119 (144)
                      .+..++||+.+++.+...+...  ......+-|+|++|+|||++++.+++.+....  -..+++.    .....+...+.
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in----~~~~~~~~~~~  103 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN----CQIDRTRYAIF  103 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE----CCcCCCHHHHH
Confidence            4467999999999998887432  23345677999999999999999999876543  2344443    12222344455


Q ss_pred             HHHHHHhhC
Q 032234          120 KQLLYELLN  128 (144)
Q Consensus       120 ~~ll~~l~~  128 (144)
                      ..++.++..
T Consensus       104 ~~i~~~l~~  112 (394)
T PRK00411        104 SEIARQLFG  112 (394)
T ss_pred             HHHHHHhcC
Confidence            555555543

>PTZ00202 tuzin; Provisional

Probab=98.52  E-value=1.1e-06  Score=72.79  Aligned_cols=90  Identities=16%  Similarity=0.124  Sum_probs=64.9

Q ss_pred             HHHHHhhccc------ccCCCCCCccchHHHHHHHHHHhhcCC-CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEE
Q 032234           30 ANEVLKRLEE------TFQSHNKDLVGVERHIKQTEPLLCTGS-AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYF  102 (144)
Q Consensus        30 v~~v~~~~~~------~~~~~~~~~vGr~~~~~~l~~~l~~~~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~  102 (144)
                      ++..++..++      ..|.+...|+||+.+...+...|...+ ...+++.|.|++|+|||||++.+.....    ...+
T Consensus       240 v~tL~~~~~~~~~~~~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL  315 (550)
T PTZ00202        240 VSTLTQPLNPRPSTLQSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAV  315 (550)
T ss_pred             HHHhhcccCCCcccccCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEE
Confidence            4555555444      345567899999999999998886433 3356889999999999999999987654    2244


Q ss_pred             EcccccccchhhHHHHHHHHHHHhhCC
Q 032234          103 AHNVRDAEETDRIKDLQKQLLYELLND  129 (144)
Q Consensus       103 v~~~~~~s~~~~~~~l~~~ll~~l~~~  129 (144)
                      +.|.      .+..+++..++..+.-.
T Consensus       316 ~vNp------rg~eElLr~LL~ALGV~  336 (550)
T PTZ00202        316 FVDV------RGTEDTLRSVVKALGVP  336 (550)
T ss_pred             EECC------CCHHHHHHHHHHHcCCC
Confidence            4322      25688888888888754

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.44  E-value=6e-07  Score=73.61  Aligned_cols=59  Identities=22%  Similarity=0.395  Sum_probs=45.1

Q ss_pred             HhhcccccCCCCCCccchHHHHHH---HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQ---TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~---l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++++|..+   .+++|++..+..   +..++.  ......+.++|++|+||||||+.+++.....|
T Consensus         3 a~~~RP~~l---~d~vGq~~~v~~~~~L~~~i~--~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~   64 (413)
T PRK13342          3 AERMRPKTL---DEVVGQEHLLGPGKPLRRMIE--AGRLSSMILWGPPGTGKTTLARIIAGATDAPF   64 (413)
T ss_pred             hhhhCCCCH---HHhcCcHHHhCcchHHHHHHH--cCCCceEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            456666655   779999877665   777774  33456788899999999999999999776555

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.42  E-value=6.1e-07  Score=72.48  Aligned_cols=100  Identities=20%  Similarity=0.309  Sum_probs=58.7

Q ss_pred             HHhhcccccCCCCCCccchHHHHHH---HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQ---TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDA  109 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~---l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~  109 (144)
                      .+++++|...   .+.||.+..+.+   |.+++  +.+.++.+.+||++|+||||||+.+.+..+.+-  ..||+...-.
T Consensus       128 LaermRPktL---~dyvGQ~hlv~q~gllrs~i--eq~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~  200 (554)
T KOG2028|consen  128 LAERMRPKTL---DDYVGQSHLVGQDGLLRSLI--EQNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATN  200 (554)
T ss_pred             hhhhcCcchH---HHhcchhhhcCcchHHHHHH--HcCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccc
Confidence            4455555544   556666654432   33334  355688899999999999999999999765542  3344422223


Q ss_pred             cchhhHHHHHHHHHH--HhhCCCC---cchHHHHH
Q 032234          110 EETDRIKDLQKQLLY--ELLNDRN---VRNVRFQL  139 (144)
Q Consensus       110 s~~~~~~~l~~~ll~--~l~~~~~---i~~~~~~l  139 (144)
                      +...++.++.++--.  .+.+.+.   |+.+..+-
T Consensus       201 a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFN  235 (554)
T KOG2028|consen  201 AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFN  235 (554)
T ss_pred             cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhh
Confidence            445566666654432  3344443   55555443

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.34  E-value=7.4e-07  Score=72.63  Aligned_cols=51  Identities=20%  Similarity=0.210  Sum_probs=39.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEEcccccccchhhHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFAHNVRDAEETDRIKDLQKQLL  123 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v~~~~~~s~~~~~~~l~~~ll  123 (144)
                      -.+|+|++|+|||||++.+|+.+.. +|+..+|+..+.+.  ...+.+++++++
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER--~~EVtdiqrsIl  222 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDER--PEEVTDMQRSVK  222 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCc--hhHHHHHHHHhc
Confidence            4568999999999999999997654 79999999944332  126777777775

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.32  E-value=1.2e-06  Score=69.64  Aligned_cols=59  Identities=19%  Similarity=0.349  Sum_probs=44.9

Q ss_pred             hhcccccCCCCCCccchHHHHHHHHHHhhc---CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           35 KRLEETFQSHNKDLVGVERHIKQTEPLLCT---GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        35 ~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~---~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|..+   .+++|++..++.+..++..   .......+-++|++|+||||||+.+++.+...
T Consensus        17 ~~~rP~~~---~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~   78 (328)
T PRK00080         17 RSLRPKSL---DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN   78 (328)
T ss_pred             hhcCcCCH---HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC
Confidence            34455444   7899999999988777642   23345678899999999999999999976543

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=98.24  E-value=6.4e-06  Score=56.02  Aligned_cols=53  Identities=26%  Similarity=0.253  Sum_probs=38.4

Q ss_pred             chHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           50 GVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        50 Gr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |++..+..+...+..  .....+.|+|++|+||||+++.+++.....-...+++.
T Consensus         2 ~~~~~~~~i~~~~~~--~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   54 (151)
T cd00009           2 GQEEAIEALREALEL--PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN   54 (151)
T ss_pred             chHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe
Confidence            667777777776642  24567889999999999999999998753333444444

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.24  E-value=2e-06  Score=66.33  Aligned_cols=51  Identities=22%  Similarity=0.232  Sum_probs=39.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEEcccccccchhhHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFAHNVRDAEETDRIKDLQKQL  122 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v~~~~~~s~~~~~~~l~~~l  122 (144)
                      ..++|.|++|+|||||++.+|+.+.. +|+..+|+..+.+-  ..++.++++.+
T Consensus        17 qr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er--~~ev~el~~~I   68 (249)
T cd01128          17 QRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER--PEEVTDMQRSV   68 (249)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCC--CccHHHHHHHh
Confidence            46789999999999999999997643 79999999833221  15666666666

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.23  E-value=1.1e-05  Score=70.70  Aligned_cols=110  Identities=17%  Similarity=0.261  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------C
Q 032234           24 ELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------F   97 (144)
Q Consensus        24 ~~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f   97 (144)
                      ..+++...++..+.++...   ..++||+.+++.+...|...  ...-+.++|++|+|||++|+.++.++...      .
T Consensus       163 ~~l~~~~~~l~~~~r~~~l---~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~  237 (731)
T TIGR02639       163 DALEKYTVDLTEKAKNGKI---DPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLK  237 (731)
T ss_pred             hHHHHHhhhHHHHHhcCCC---CcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhc
Confidence            3566666666666665544   57999999999998887532  34456799999999999999999976332      2


Q ss_pred             CcEEEEccccccc----chhhHHHHHHHHHHHhhCCCC----cchHHHH
Q 032234           98 EGSYFAHNVRDAE----ETDRIKDLQKQLLYELLNDRN----VRNVRFQ  138 (144)
Q Consensus        98 ~~~~~v~~~~~~s----~~~~~~~l~~~ll~~l~~~~~----i~~~~~~  138 (144)
                      ...+|..++....    .....+.-++.+++.+.....    ||.++..
T Consensus       238 ~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l  286 (731)
T TIGR02639       238 NAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTI  286 (731)
T ss_pred             CCeEEEecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHH
Confidence            4556654332221    112344555666666544333    5555544

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.23  E-value=2.2e-06  Score=66.99  Aligned_cols=59  Identities=20%  Similarity=0.349  Sum_probs=45.9

Q ss_pred             hcccccCCCCCCccchHHHHHHHHHHhh---cCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           36 RLEETFQSHNKDLVGVERHIKQTEPLLC---TGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        36 ~~~~~~~~~~~~~vGr~~~~~~l~~~l~---~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++|+.+   .+++|.+..++.+.-++.   .....+-.+-++|++|.||||||..+++.+..++
T Consensus        19 ~lRP~~l---~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~   80 (332)
T COG2255          19 SLRPKTL---DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNL   80 (332)
T ss_pred             ccCcccH---HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCe
Confidence            4455555   789999998888766554   2345678899999999999999999999875544

>PRK08118 topology modulation protein; Reviewed

Probab=98.21  E-value=1.8e-06  Score=62.52  Aligned_cols=51  Identities=24%  Similarity=0.391  Sum_probs=34.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc---cCCcEEEEcccccccchhhHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE---HFEGSYFAHNVRDAEETDRIKDLQKQL  122 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~---~f~~~~~v~~~~~~s~~~~~~~l~~~l  122 (144)
                      -|.|+|++|+||||||+.+++....   +|+..+|-..-..+++. ....+++++
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~   56 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKE-EQITVQNEL   56 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHH-HHHHHHHHH
Confidence            4789999999999999999997653   47777754322224432 344444444

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.21  E-value=7e-07  Score=66.16  Aligned_cols=55  Identities=22%  Similarity=0.369  Sum_probs=39.5

Q ss_pred             ccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           48 LVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |+||+.+++.+.+++...  ....+.|+|+.|+|||+|++.+.+.....-...+|+.
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~   55 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYID   55 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHC
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEe
Confidence            689999999999988642  3567889999999999999999997744322344443

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.18  E-value=2e-06  Score=67.37  Aligned_cols=51  Identities=24%  Similarity=0.413  Sum_probs=40.6

Q ss_pred             CCccchHHHHHHHHHHhhcC---CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCTG---SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~---~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+|+|++..++.+..++...   ......+-++|++|+|||+||+.+++.....
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~   57 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN   57 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            57999999999988877521   2335567899999999999999999976543

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.17  E-value=3e-06  Score=66.92  Aligned_cols=58  Identities=16%  Similarity=0.232  Sum_probs=44.7

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.++.+|..+   .+++|++..++.+..++..  +..+.+-++|++|+||||+|+.+.+.+..
T Consensus         5 w~~ky~P~~~---~~~~g~~~~~~~L~~~~~~--~~~~~lll~Gp~GtGKT~la~~~~~~l~~   62 (337)
T PRK12402          5 WTEKYRPALL---EDILGQDEVVERLSRAVDS--PNLPHLLVQGPPGSGKTAAVRALARELYG   62 (337)
T ss_pred             hHHhhCCCcH---HHhcCCHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            3445566554   6799999999999888743  34445779999999999999999987643

>PLN03025 replication factor C subunit; Provisional

Probab=98.15  E-value=2.9e-06  Score=67.30  Aligned_cols=57  Identities=23%  Similarity=0.232  Sum_probs=44.3

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |.++.+|...   .+++|.+..+..+..++.  ....+.+-+||++|+||||+|..+++.+.
T Consensus         3 w~~kyrP~~l---~~~~g~~~~~~~L~~~~~--~~~~~~lll~Gp~G~GKTtla~~la~~l~   59 (319)
T PLN03025          3 WVEKYRPTKL---DDIVGNEDAVSRLQVIAR--DGNMPNLILSGPPGTGKTTSILALAHELL   59 (319)
T ss_pred             hhhhcCCCCH---HHhcCcHHHHHHHHHHHh--cCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            3456666655   789999988888887774  33445577999999999999999999763

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.14  E-value=2.4e-05  Score=69.40  Aligned_cols=109  Identities=17%  Similarity=0.217  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------CC
Q 032234           25 LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------FE   98 (144)
Q Consensus        25 ~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~   98 (144)
                      .+++...++.++......   ..++||+++++.+..+|...  ..+.+.++|++|+|||++|..++.++...      -.
T Consensus       161 ~l~~~~~~l~~~a~~~~~---~~~igr~~ei~~~~~~L~r~--~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~  235 (821)
T CHL00095        161 TLEEFGTNLTKEAIDGNL---DPVIGREKEIERVIQILGRR--TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILED  235 (821)
T ss_pred             HHHHHHHHHHHHHHcCCC---CCCCCcHHHHHHHHHHHccc--ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcC
Confidence            444444444444333222   45899999999999988533  33455699999999999999999976421      13


Q ss_pred             cEEEEccccccc---c-hhhHHHHHHHHHHHhhCCCC----cchHHHH
Q 032234           99 GSYFAHNVRDAE---E-TDRIKDLQKQLLYELLNDRN----VRNVRFQ  138 (144)
Q Consensus        99 ~~~~v~~~~~~s---~-~~~~~~l~~~ll~~l~~~~~----i~~~~~~  138 (144)
                      ..+|.-++..+.   . ....+.-++.+++.+.....    ||.++..
T Consensus       236 ~~i~~l~~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l  283 (821)
T CHL00095        236 KLVITLDIGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTL  283 (821)
T ss_pred             CeEEEeeHHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHH
Confidence            556665443221   1 22345556666666654333    5655543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.10  E-value=2.9e-05  Score=69.11  Aligned_cols=99  Identities=17%  Similarity=0.202  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------CC
Q 032234           25 LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------FE   98 (144)
Q Consensus        25 ~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~   98 (144)
                      .+++...+...+.++...   ..++||+.+++.+...|...  ....+.++|++|+||||+|..+..++...      ..
T Consensus       160 ~l~~~~~~l~~~~r~~~l---~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~  234 (857)
T PRK10865        160 ALKKYTIDLTERAEQGKL---DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKG  234 (857)
T ss_pred             HHHHHhhhHHHHHhcCCC---CcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCC
Confidence            455555555555555444   56999999999999888533  33455689999999999999999976431      13


Q ss_pred             cEEEEccccccc----chhhHHHHHHHHHHHhhC
Q 032234           99 GSYFAHNVRDAE----ETDRIKDLQKQLLYELLN  128 (144)
Q Consensus        99 ~~~~v~~~~~~s----~~~~~~~l~~~ll~~l~~  128 (144)
                      ..+|..++....    ..-.++.-++.++..+..
T Consensus       235 ~~~~~l~l~~l~ag~~~~g~~e~~lk~~~~~~~~  268 (857)
T PRK10865        235 RRVLALDMGALVAGAKYRGEFEERLKGVLNDLAK  268 (857)
T ss_pred             CEEEEEehhhhhhccchhhhhHHHHHHHHHHHHH
Confidence            444444333221    122344455566665543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.10  E-value=3.5e-05  Score=68.63  Aligned_cols=99  Identities=13%  Similarity=0.165  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------C
Q 032234           24 ELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------F   97 (144)
Q Consensus        24 ~~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f   97 (144)
                      ..+++...++..+.++...   ..++||+.+++.+...|...  ....+.++|++|+||||+|..++.++...      .
T Consensus       168 ~~l~~~~~~L~~~~r~~~l---d~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~  242 (852)
T TIGR03345       168 SALDQYTTDLTAQAREGKI---DPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALR  242 (852)
T ss_pred             hhHHHHhhhHHHHhcCCCC---CcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCcccc
Confidence            3556666666666666544   67999999999998877432  33455699999999999999999986432      2


Q ss_pred             CcEEEEccccccc----chhhHHHHHHHHHHHhh
Q 032234           98 EGSYFAHNVRDAE----ETDRIKDLQKQLLYELL  127 (144)
Q Consensus        98 ~~~~~v~~~~~~s----~~~~~~~l~~~ll~~l~  127 (144)
                      ...+|..++..+.    -...++.-++.++..+.
T Consensus       243 ~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii~e~~  276 (852)
T TIGR03345       243 NVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVK  276 (852)
T ss_pred             CCeEEEeehhhhhcccccchHHHHHHHHHHHHHH
Confidence            3556654444332    12334455555666554

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.06  E-value=5.2e-06  Score=72.56  Aligned_cols=60  Identities=27%  Similarity=0.393  Sum_probs=44.3

Q ss_pred             HHhhcccccCCCCCCccchHHHHH---HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIK---QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~---~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +..+++|..+   .+++|++..+.   .+.+++.  ......+-+||++|+||||||+.+++....+|
T Consensus        18 Laek~RP~tl---dd~vGQe~ii~~~~~L~~~i~--~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f   80 (725)
T PRK13341         18 LADRLRPRTL---EEFVGQDHILGEGRLLRRAIK--ADRVGSLILYGPPGVGKTTLARIIANHTRAHF   80 (725)
T ss_pred             hHHhcCCCcH---HHhcCcHHHhhhhHHHHHHHh--cCCCceEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence            4556666554   67899987764   4555553  34556778999999999999999999776555

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.04  E-value=1.4e-05  Score=54.58  Aligned_cols=58  Identities=21%  Similarity=0.257  Sum_probs=40.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc-----CCcEEEEcccccccchhhHHHHHHHHHHHhhCCC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH-----FEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDR  130 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~-----f~~~~~v~~~~~~s~~~~~~~l~~~ll~~l~~~~  130 (144)
                      -+++.|+|.+|+|||+++..+.+.....     -...+|+.    .....+...+...++..+....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~~~l~~~~   66 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN----CPSSRTPRDFAQEILEALGLPL   66 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE----HHHHSSHHHHHHHHHHHHT-SS
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE----eCCCCCHHHHHHHHHHHhCccc
Confidence            4678899999999999999999976543     34556776    5555578888888888877543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.02  E-value=8e-06  Score=65.90  Aligned_cols=57  Identities=19%  Similarity=0.247  Sum_probs=45.6

Q ss_pred             CCccchHHHHHHHHHHhhcC----CCCeEEEEEEccCCCchHHHHHHHHHHhhc-------cCCcEEE
Q 032234           46 KDLVGVERHIKQTEPLLCTG----SAGVYILGIWGIGGIGKTTIADAVFNKISE-------HFEGSYF  102 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~----~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~-------~f~~~~~  102 (144)
                      .+++|.++.++.+..++...    ....+++.++|++|+||||||..+.+.+..       .|....|
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            37999999999998887532    334688999999999999999999997654       4556666

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.01  E-value=6.1e-06  Score=68.98  Aligned_cols=59  Identities=24%  Similarity=0.306  Sum_probs=45.7

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcC--CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTG--SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |..+.+|..+   .+++|.+..++.+..|+..-  ....+.+-|+|++|+||||+|.++++.+.
T Consensus         4 W~eKyrP~~l---~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~   64 (482)
T PRK04195          4 WVEKYRPKTL---SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG   64 (482)
T ss_pred             chhhcCCCCH---HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            3445555554   78999999999999988532  12267888999999999999999998763

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.00  E-value=1e-05  Score=63.29  Aligned_cols=58  Identities=21%  Similarity=0.220  Sum_probs=44.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.++.+|.+.   .+++|++..++.+..++..  ...+.+-++|++|+||||+++.+++.+..
T Consensus         7 w~~kyrP~~~---~~~~g~~~~~~~l~~~i~~--~~~~~~ll~G~~G~GKt~~~~~l~~~l~~   64 (319)
T PRK00440          7 WVEKYRPRTL---DEIVGQEEIVERLKSYVKE--KNMPHLLFAGPPGTGKTTAALALARELYG   64 (319)
T ss_pred             cchhhCCCcH---HHhcCcHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHcC
Confidence            3445555544   6799999999999888853  33445789999999999999999997643

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=1.2e-05  Score=67.31  Aligned_cols=59  Identities=19%  Similarity=0.174  Sum_probs=45.3

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+.++++|..+   .+++|.+.....+...+... .-.+.+-+||++|+||||+|+.+++.+.
T Consensus         3 ~l~~kyRP~~~---~divGq~~i~~~L~~~i~~~-~l~~~~Lf~GPpGtGKTTlA~~lA~~l~   61 (472)
T PRK14962          3 ALYRKYRPKTF---SEVVGQDHVKKLIINALKKN-SISHAYIFAGPRGTGKTTVARILAKSLN   61 (472)
T ss_pred             hhHHHHCCCCH---HHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            35567777776   78999998878787777422 2235678999999999999999988653

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.00  E-value=6e-05  Score=67.15  Aligned_cols=109  Identities=17%  Similarity=0.240  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------CC
Q 032234           25 LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------FE   98 (144)
Q Consensus        25 ~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~   98 (144)
                      .+++...++..+.++...   ..++||+.+++.+...|...  ....+.++|++|+|||++|..+..++...      ..
T Consensus       155 ~l~~~~~~l~~~~~~~~~---~~~igr~~ei~~~~~~l~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~  229 (852)
T TIGR03346       155 ALEKYARDLTERAREGKL---DPVIGRDEEIRRTIQVLSRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKN  229 (852)
T ss_pred             HHHHHhhhHHHHhhCCCC---CcCCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcC
Confidence            444444445555444433   56999999999999888533  33445589999999999999999976432      23


Q ss_pred             cEEEEcccccc----cchhhHHHHHHHHHHHhhCCC-C----cchHHHH
Q 032234           99 GSYFAHNVRDA----EETDRIKDLQKQLLYELLNDR-N----VRNVRFQ  138 (144)
Q Consensus        99 ~~~~v~~~~~~----s~~~~~~~l~~~ll~~l~~~~-~----i~~~~~~  138 (144)
                      ..+|..++...    .-....+.-++.++..+.... .    ||.++..
T Consensus       230 ~~~~~l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l  278 (852)
T TIGR03346       230 KRLLALDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTL  278 (852)
T ss_pred             CeEEEeeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHh
Confidence            44555433322    111234445566666664322 2    5655544

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR00767 rho transcription termination factor Rho

Probab=97.95  E-value=1.3e-05  Score=65.60  Aligned_cols=56  Identities=18%  Similarity=0.183  Sum_probs=41.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEEcccccccchhhHHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFAHNVRDAEETDRIKDLQKQLLYELL  127 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v~~~~~~s~~~~~~~l~~~ll~~l~  127 (144)
                      ..++|+|++|+|||||+..+++.+.. +|+..+|+..+.+-  ...+.++++.++..+.
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER--~~EVtDLqrsIlg~Vv  225 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER--PEEVTDMQRSVKGEVV  225 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC--CccHHHHHHHhhceEE
Confidence            35779999999999999999997654 59999999833221  2567777777754433

Members of this family differ in the specificity of RNA binding.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=2.4e-05  Score=63.24  Aligned_cols=58  Identities=21%  Similarity=0.319  Sum_probs=45.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++.+|..+   .+++|.+..++.+.+.+... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~kyrP~~~---~~iiGq~~~~~~l~~~~~~~-~~~h~~L~~Gp~G~GKTtla~~la~~l~   63 (363)
T PRK14961          6 LARKWRPQYF---RDIIGQKHIVTAISNGLSLG-RIHHAWLLSGTRGVGKTTIARLLAKSLN   63 (363)
T ss_pred             HHHHhCCCch---hhccChHHHHHHHHHHHHcC-CCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence            4556677666   78999999999888877532 2245678999999999999999998764

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.0001  Score=59.87  Aligned_cols=79  Identities=20%  Similarity=0.227  Sum_probs=55.9

Q ss_pred             CCccchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC-c-EEEEcccccccchhhHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE-G-SYFAHNVRDAEETDRIKDLQKQ  121 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~-~-~~~v~~~~~~s~~~~~~~l~~~  121 (144)
                      ..+.+|+.+++++...|..  .......+-|+|.+|+|||+.++.+.+++..... . .++|.    .........+...
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yIN----c~~~~t~~~i~~~   92 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYIN----CLELRTPYQVLSK   92 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEe----eeeCCCHHHHHHH
Confidence            5599999999999877643  1222334889999999999999999998766522 1 45554    3334566677777


Q ss_pred             HHHHhhC
Q 032234          122 LLYELLN  128 (144)
Q Consensus       122 ll~~l~~  128 (144)
                      ++.++.+
T Consensus        93 i~~~~~~   99 (366)
T COG1474          93 ILNKLGK   99 (366)
T ss_pred             HHHHcCC
Confidence            7776653

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.93  E-value=1e-05  Score=54.68  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|++|+||||+|+.+.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            588999999999999999999753

...

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.92  E-value=1.4e-05  Score=62.78  Aligned_cols=56  Identities=16%  Similarity=0.137  Sum_probs=43.1

Q ss_pred             hhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           35 KRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        35 ~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++.+|..+   .+++|.+...+.+..++.. ..-...+-++|++|+||||+|..+++...
T Consensus        13 ~kyrP~~~---~~~~~~~~~~~~l~~~~~~-~~~~~~lll~G~~G~GKT~la~~l~~~~~   68 (316)
T PHA02544         13 QKYRPSTI---DECILPAADKETFKSIVKK-GRIPNMLLHSPSPGTGKTTVAKALCNEVG   68 (316)
T ss_pred             eccCCCcH---HHhcCcHHHHHHHHHHHhc-CCCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            44555444   7899999999988888853 22345667799999999999999998764

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=2.6e-05  Score=63.75  Aligned_cols=59  Identities=19%  Similarity=0.173  Sum_probs=45.8

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++++|..+   .+++|.+..+..|.+++... .-.+.+-++|++|+||||+|..+.+.+..
T Consensus         6 l~~k~RP~~~---~eiiGq~~~~~~L~~~~~~~-~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c   64 (397)
T PRK14955          6 IARKYRPKKF---ADITAQEHITRTIQNSLRMG-RVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (397)
T ss_pred             HHHhcCCCcH---hhccChHHHHHHHHHHHHhC-CcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            4556777666   78999998888888888532 22345789999999999999999987643

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.87  E-value=5.2e-05  Score=58.04  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+.|+|++|+|||||++.+++...
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            45788999999999999999999765

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK06696 uridine kinase; Validated

Probab=97.86  E-value=5.8e-05  Score=56.89  Aligned_cols=45  Identities=29%  Similarity=0.302  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           51 VERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        51 r~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.+.+++|...+.. ......+|+|.|.+|+||||||..+...+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            55666777665543 3456889999999999999999999987643

>PRK07261 topology modulation protein; Provisional

Probab=97.85  E-value=5.1e-05  Score=55.07  Aligned_cols=34  Identities=26%  Similarity=0.406  Sum_probs=26.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc---cCCcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE---HFEGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~---~f~~~~~v~  104 (144)
                      .|.|+|++|+||||||+.+......   +.+...|-.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~   38 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQP   38 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEecc
Confidence            4789999999999999999876432   356666644

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.83  E-value=2.1e-05  Score=63.49  Aligned_cols=52  Identities=25%  Similarity=0.344  Sum_probs=39.5

Q ss_pred             CCccchHHHHHHHHHHhhcC--C---------CCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCTG--S---------AGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~--~---------~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++.|++.+++.+...+...  .         ...+-+.++|++|+|||++|+++++.....|
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~  184 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF  184 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCE
Confidence            56899999999887765311  1         1245688999999999999999998765544

Many proteins may score above the trusted cutoff because an internal

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.82  E-value=9.4e-05  Score=62.88  Aligned_cols=58  Identities=16%  Similarity=0.169  Sum_probs=45.4

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..+..+...+... .-.+.+-++|+.|+||||+|+.++..+.
T Consensus         6 La~KyRP~~f---~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~   63 (546)
T PRK14957          6 LARKYRPQSF---AEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLN   63 (546)
T ss_pred             HHHHHCcCcH---HHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4556677666   78999999998888888532 2245577899999999999999998654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.82  E-value=7.6e-05  Score=55.72  Aligned_cols=51  Identities=20%  Similarity=0.318  Sum_probs=35.4

Q ss_pred             hHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           51 VERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        51 r~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ....++.+.+++.  ......+-++|++|+|||+||+.+++..........++
T Consensus        22 ~~~~~~~l~~~~~--~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i   72 (226)
T TIGR03420        22 NAELLAALRQLAA--GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYL   72 (226)
T ss_pred             cHHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEE
Confidence            3445666777653  23456788999999999999999998765433333344

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.81  E-value=0.0001  Score=65.59  Aligned_cols=59  Identities=15%  Similarity=0.165  Sum_probs=46.0

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.++++|..+   .+++|.+..+..|.+++... .-.+.+.++|+.|+||||+|+.+++.+..
T Consensus         6 LaeKyRP~tF---ddIIGQe~Iv~~LknaI~~~-rl~HAyLFtGPpGtGKTTLARiLAk~Lnc   64 (944)
T PRK14949          6 LARKWRPATF---EQMVGQSHVLHALTNALTQQ-RLHHAYLFTGTRGVGKTSLARLFAKGLNC   64 (944)
T ss_pred             HHHHhCCCCH---HHhcCcHHHHHHHHHHHHhC-CCCeEEEEECCCCCCHHHHHHHHHHhccC
Confidence            4556777666   78999999999998887532 12345579999999999999999997654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.78  E-value=4.4e-05  Score=65.38  Aligned_cols=59  Identities=22%  Similarity=0.181  Sum_probs=46.5

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+.++.+|..+   .+++|++..++.+.+.+... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         5 ~~~~KyRP~~F---~dIIGQe~iv~~L~~aI~~~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~   63 (605)
T PRK05896          5 TFYRKYRPHNF---KQIIGQELIKKILVNAILNN-KLTHAYIFSGPRGIGKTSIAKIFAKAIN   63 (605)
T ss_pred             hHHHHhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            35567777776   78999999998888887432 2245678999999999999999988753

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=4.4e-05  Score=63.81  Aligned_cols=59  Identities=22%  Similarity=0.311  Sum_probs=46.0

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.++.+|..+   .+++|.+..+..|..++.... -.+.+-++|+.|+||||+|+.++..+..
T Consensus         8 L~~KyRP~~f---~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnc   66 (484)
T PRK14956          8 LSRKYRPQFF---RDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNC   66 (484)
T ss_pred             hHHHhCCCCH---HHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            4556677666   789999999988888885322 2345789999999999999999997643

>PRK07667 uridine kinase; Provisional

Probab=97.76  E-value=8.7e-05  Score=54.80  Aligned_cols=38  Identities=24%  Similarity=0.356  Sum_probs=29.7

Q ss_pred             HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           57 QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        57 ~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+...+.....+..+|+|.|.+|+||||+|..+...+.
T Consensus         5 ~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667          5 ELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             HHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444544455678999999999999999999998654

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.76  E-value=0.00011  Score=64.49  Aligned_cols=58  Identities=21%  Similarity=0.225  Sum_probs=45.3

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.+++++..+   .+++|.+..++.|.+++.... -.+.+.++|..|+||||+|+.+.+.+.
T Consensus         6 LarKYRPqtF---dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLn   63 (830)
T PRK07003          6 LARKWRPKDF---ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALN   63 (830)
T ss_pred             HHHHhCCCcH---HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556677766   889999999999998885332 244556999999999999999888653

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.76  E-value=0.00012  Score=61.76  Aligned_cols=58  Identities=16%  Similarity=0.182  Sum_probs=45.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~kyRP~~f---~divGq~~v~~~L~~~~~~~-~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~   63 (509)
T PRK14958          6 LARKWRPRCF---QEVIGQAPVVRALSNALDQQ-YLHHAYLFTGTRGVGKTTISRILAKCLN   63 (509)
T ss_pred             HHHHHCCCCH---HHhcCCHHHHHHHHHHHHhC-CCCeeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556777766   78999999999999888532 2234568999999999999999998653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.74  E-value=4.9e-05  Score=64.07  Aligned_cols=58  Identities=22%  Similarity=0.174  Sum_probs=45.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++++|..+   .+++|.+..++.|..++... .-.+.+.++|++|+||||+|+.+++.+.
T Consensus         4 l~~KyRP~~~---~dvvGq~~v~~~L~~~i~~~-~l~ha~Lf~GppGtGKTTlA~~lA~~l~   61 (504)
T PRK14963          4 LYQRARPITF---DEVVGQEHVKEVLLAALRQG-RLGHAYLFSGPRGVGKTTTARLIAMAVN   61 (504)
T ss_pred             HHHhhCCCCH---HHhcChHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3456666665   78999999888888887532 2245668999999999999999999764

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.74  E-value=8e-05  Score=61.82  Aligned_cols=55  Identities=20%  Similarity=0.141  Sum_probs=41.0

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc--cCCcEEEEc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE--HFEGSYFAH  104 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~--~f~~~~~v~  104 (144)
                      .++++.+...+.+...|..    ...+.++|++|+|||++|+.+++.+..  .|....|+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt  231 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ  231 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe
Confidence            3566777777777766642    346778999999999999999997643  466666776

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.73  E-value=4.1e-05  Score=58.78  Aligned_cols=81  Identities=19%  Similarity=0.245  Sum_probs=55.8

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc-cC-CcEEEEccccccc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE-HF-EGSYFAHNVRDAE  110 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~-~f-~~~~~v~~~~~~s  110 (144)
                      |.++.+|...   .++||-++.++.+.-+.  .+.+.+.+.|.||+|+||||-+..+++.+.. .+ +...=+.    .|
T Consensus        17 wVeKYrP~~l---~dIVGNe~tv~rl~via--~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELN----AS   87 (333)
T KOG0991|consen   17 WVEKYRPSVL---QDIVGNEDTVERLSVIA--KEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELN----AS   87 (333)
T ss_pred             HHHhhCchHH---HHhhCCHHHHHHHHHHH--HcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhcc----Cc
Confidence            4445555444   78999999888877554  4567888999999999999999999987644 23 3333333    45


Q ss_pred             chhhHHHHHHHH
Q 032234          111 ETDRIKDLQKQL  122 (144)
Q Consensus       111 ~~~~~~~l~~~l  122 (144)
                      ++.++.-+...|
T Consensus        88 deRGIDvVRn~I   99 (333)
T KOG0991|consen   88 DERGIDVVRNKI   99 (333)
T ss_pred             cccccHHHHHHH
Confidence            666665544444

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.73  E-value=0.00035  Score=62.35  Aligned_cols=51  Identities=31%  Similarity=0.313  Sum_probs=40.4

Q ss_pred             CCCCccchHHHHHHHHHHhhc---CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           44 HNKDLVGVERHIKQTEPLLCT---GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        44 ~~~~~vGr~~~~~~l~~~l~~---~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+..+.||+.+++.|...|..   .+..-.++-|+|++|+|||+.++.+.+.+.
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq  806 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ  806 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            346899999999999887753   222335677999999999999999998764

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.73  E-value=0.00033  Score=61.72  Aligned_cols=64  Identities=22%  Similarity=0.288  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           25 LVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        25 ~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++...++......-..   ..++||+.+++.+...|....  ...+.++|++|+|||++|+.++..+
T Consensus       168 ~l~~~~~~l~~~a~~g~~---~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        168 RMENFTTNLNQLARVGGI---DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             HHHHHHHhHHHHHHcCCC---CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            555555555554443333   469999999999998886432  2334579999999999999999865

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.73  E-value=6e-05  Score=64.93  Aligned_cols=46  Identities=30%  Similarity=0.380  Sum_probs=37.1

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++++|++..+..+.+.+.  ......+.|+|++|+||||||+.+++..
T Consensus       154 ~~iiGqs~~~~~l~~~ia--~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVA--SPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             HhceeCcHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            679999988887766553  2335578999999999999999998865

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PF05729 NACHT: NACHT domain

Probab=97.72  E-value=7.2e-05  Score=52.54  Aligned_cols=27  Identities=30%  Similarity=0.413  Sum_probs=23.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++.|+|.+|+||||++..++..+...
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~   27 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEE   27 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhc
Confidence            468899999999999999999876543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.72  E-value=4.4e-05  Score=62.31  Aligned_cols=51  Identities=24%  Similarity=0.302  Sum_probs=38.6

Q ss_pred             CCccchHHHHHHHHHHhhc---C--------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT---G--------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|++.+++.+...+..   .        -...+-+.++|++|+|||++|+++++.....
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~  192 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT  192 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC
Confidence            4688999999988775521   1        1234568899999999999999999876543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.71  E-value=5.5e-05  Score=58.30  Aligned_cols=48  Identities=23%  Similarity=0.217  Sum_probs=32.9

Q ss_pred             CCccchHHHHHHHHH---Hhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEP---LLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~---~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|.+..++.+..   ++..          .......+.++|++|+||||+|+.+++.+
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            357888776665543   2210          12235677899999999999999998754

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.71  E-value=3.1e-05  Score=52.57  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=21.7

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhcc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      |-++|++|+||||+|+.+++.+..+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~   25 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP   25 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc
Confidence            4689999999999999999987533

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK06893 DNA replication initiation factor; Validated

Probab=97.70  E-value=0.00013  Score=55.32  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=27.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      -+.+-+||++|+|||+|+.++++..........|+.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~   74 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP   74 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee
Confidence            356889999999999999999997644444445554

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.69  E-value=6.6e-05  Score=64.93  Aligned_cols=58  Identities=22%  Similarity=0.236  Sum_probs=45.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++.+|..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+++.+.
T Consensus         5 LarKyRPktF---ddVIGQe~vv~~L~~aI~~g-rl~HAyLF~GPpGvGKTTlAriLAK~Ln   62 (702)
T PRK14960          5 LARKYRPRNF---NELVGQNHVSRALSSALERG-RLHHAYLFTGTRGVGKTTIARILAKCLN   62 (702)
T ss_pred             HHHHhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456677666   78999999999999888533 2246778999999999999999988754

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.69  E-value=8.5e-05  Score=62.98  Aligned_cols=69  Identities=22%  Similarity=0.340  Sum_probs=47.3

Q ss_pred             cchHHHHHHHHH-----HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           20 SPDSELVEVIAN-----EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        20 ~~~~~~i~~iv~-----~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+.+.++++..     .+.++.+|..+   .+++|.+..++.+...+..  .....+-|+|++|+|||++|+.+++..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~rp~~f---~~iiGqs~~i~~l~~al~~--~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        37 KKELEKLNKMRAIRLTEPLSEKTRPKSF---DEIIGQEEGIKALKAALCG--PNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             hHHHHHHHHhhhhhhcchHHHhhCcCCH---HHeeCcHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            344444444433     45555555544   6799999988888766532  233456789999999999999998743

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.68  E-value=0.00016  Score=62.53  Aligned_cols=58  Identities=19%  Similarity=0.198  Sum_probs=45.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.+++++..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+.+.+.
T Consensus         6 LarKYRPqtF---ddVIGQe~vv~~L~~al~~g-RLpHA~LFtGP~GvGKTTLAriLAkaLn   63 (700)
T PRK12323          6 LARKWRPRDF---TTLVGQEHVVRALTHALEQQ-RLHHAYLFTGTRGVGKTTLSRILAKSLN   63 (700)
T ss_pred             HHHHhCCCcH---HHHcCcHHHHHHHHHHHHhC-CCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4456677666   78999999999998888532 2245568899999999999999988664

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.66  E-value=6.4e-05  Score=54.44  Aligned_cols=37  Identities=30%  Similarity=0.508  Sum_probs=28.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CC-cEEEEccc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FE-GSYFAHNV  106 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~-~~~~v~~~  106 (144)
                      .-|.|.||+|+||||++..+.+.++.. |. .-+|...+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EV   44 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEV   44 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeee
Confidence            467899999999999999999987665 54 33444444

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.65  E-value=8.5e-05  Score=53.72  Aligned_cols=35  Identities=31%  Similarity=0.618  Sum_probs=30.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ..+|.+.|+.|+||||+|+.++..+...+...+++
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~   41 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL   41 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence            45889999999999999999999887777766666

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.64  E-value=9.3e-05  Score=62.16  Aligned_cols=56  Identities=21%  Similarity=0.197  Sum_probs=43.6

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.+|..+   .+++|.+..++.|.+.+... .-.+.+-++|+.|+||||+|+.++..+
T Consensus         4 a~KyRP~~f---~dliGQe~vv~~L~~a~~~~-ri~ha~Lf~Gp~G~GKTT~ArilAk~L   59 (491)
T PRK14964          4 ALKYRPSSF---KDLVGQDVLVRILRNAFTLN-KIPQSILLVGASGVGKTTCARIISLCL   59 (491)
T ss_pred             hHHhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCccHHHHHHHHHHHH
Confidence            456667666   78999999888888777432 224578899999999999999998754

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.63  E-value=9.3e-05  Score=62.41  Aligned_cols=58  Identities=21%  Similarity=0.181  Sum_probs=44.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..+..|...+... .-.+.+-++|+.|+||||+|+.++..+.
T Consensus        11 la~kyRP~~f---~dliGq~~vv~~L~~ai~~~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln   68 (507)
T PRK06645         11 FARKYRPSNF---AELQGQEVLVKVLSYTILND-RLAGGYLLTGIRGVGKTTSARIIAKAVN   68 (507)
T ss_pred             hhhhhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            4455666655   78999999888888766422 2346778999999999999999999763

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.63  E-value=0.0001  Score=63.49  Aligned_cols=58  Identities=17%  Similarity=0.154  Sum_probs=45.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++++|..+   .+++|.+..+..+.+++.. ..-.+.+.++|+.|+||||+|+.+...+.
T Consensus         6 l~~kyRP~~f---~eivGQe~i~~~L~~~i~~-~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~   63 (620)
T PRK14954          6 IARKYRPSKF---ADITAQEHITHTIQNSLRM-DRVGHGYIFSGLRGVGKTTAARVFAKAVN   63 (620)
T ss_pred             HHHHHCCCCH---HHhcCcHHHHHHHHHHHHc-CCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4566777766   8899999988888887742 22245588999999999999999998764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.62  E-value=7.9e-05  Score=49.94  Aligned_cols=35  Identities=29%  Similarity=0.341  Sum_probs=26.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..+.|+|++|+||||++..++..+.......+++.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            46889999999999999999997655443344443

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.62  E-value=5.8e-05  Score=51.00  Aligned_cols=22  Identities=50%  Similarity=0.780  Sum_probs=19.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.+..+.
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998873

...

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.62  E-value=0.00049  Score=55.97  Aligned_cols=76  Identities=21%  Similarity=0.278  Sum_probs=59.7

Q ss_pred             CCCccchHHHHHHHHHHhhcCCCCeE-EEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHHHHHHHH
Q 032234           45 NKDLVGVERHIKQTEPLLCTGSAGVY-ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLL  123 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~~~~~~-~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~l~~~ll  123 (144)
                      .+++.+|+.++..+..++...+...+ .+-|+|-.|+|||.+.+.+++..   -.+.+|+.    .-..+....+...||
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~~~vw~n----~~ecft~~~lle~IL   77 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NLENVWLN----CVECFTYAILLEKIL   77 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CCcceeee----hHHhccHHHHHHHHH
Confidence            46788999999999999865544444 44889999999999999998876   23567887    556677778888888


Q ss_pred             HHhh
Q 032234          124 YELL  127 (144)
Q Consensus       124 ~~l~  127 (144)
                      .++.
T Consensus        78 ~~~~   81 (438)
T KOG2543|consen   78 NKSQ   81 (438)
T ss_pred             HHhc
Confidence            8873

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.61  E-value=0.00015  Score=57.78  Aligned_cols=58  Identities=19%  Similarity=0.253  Sum_probs=44.4

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.+..++... .-.+.+-++|++|+||||+|+.+...+.
T Consensus         4 ~~~~~rp~~~---~~iig~~~~~~~l~~~~~~~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~   61 (355)
T TIGR02397         4 LARKYRPQTF---EDVIGQEHIVQTLKNAIKNG-RIAHAYLFSGPRGTGKTSIARIFAKALN   61 (355)
T ss_pred             HHHHhCCCcH---hhccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3455566555   78999999999998888532 2245678899999999999999988653

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.60  E-value=0.00012  Score=63.14  Aligned_cols=58  Identities=17%  Similarity=0.231  Sum_probs=45.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 la~KyRP~~f---~dviGQe~vv~~L~~~l~~~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~Ln   63 (618)
T PRK14951          6 LARKYRPRSF---SEMVGQEHVVQALTNALTQQ-RLHHAYLFTGTRGVGKTTVSRILAKSLN   63 (618)
T ss_pred             HHHHHCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4566777766   88999998888888888532 2345678999999999999999977653

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.60  E-value=0.00024  Score=53.33  Aligned_cols=47  Identities=19%  Similarity=0.449  Sum_probs=31.2

Q ss_pred             CCcc-chH-HHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLV-GVE-RHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~v-Gr~-~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++ |.. .....+..+.. .......+.++|.+|+|||+||..+++..
T Consensus        18 d~f~~~~~~~~~~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         18 DNFVAGENAELVARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cccccCCcHHHHHHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3444 433 33344555543 22334677899999999999999999864

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.60  E-value=0.00015  Score=58.41  Aligned_cols=58  Identities=22%  Similarity=0.201  Sum_probs=46.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.+.+.+... .-.+.+-++|++|+||||+|..+.+.+.
T Consensus         7 ~~~k~rP~~~---~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~   64 (367)
T PRK14970          7 SARKYRPQTF---DDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKIN   64 (367)
T ss_pred             HHHHHCCCcH---HhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5567777666   78999999999888888532 2245788999999999999999988764

>PRK12377 putative replication protein; Provisional

Probab=97.58  E-value=0.00068  Score=52.29  Aligned_cols=36  Identities=19%  Similarity=0.163  Sum_probs=30.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ...+.++|.+|+|||+||.++++.+......+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            467889999999999999999998876656666665

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.58  E-value=0.00013  Score=62.56  Aligned_cols=57  Identities=19%  Similarity=0.182  Sum_probs=45.0

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.+|..+   .+++|.+..++.|..++... .-.+.+.++|+.|+||||+|+.+...+.
T Consensus         4 ~~kyRP~~f---~eivGq~~i~~~L~~~i~~~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~   60 (584)
T PRK14952          4 YRKYRPATF---AEVVGQEHVTEPLSSALDAG-RINHAYLFSGPRGCGKTSSARILARSLN   60 (584)
T ss_pred             HHHhCCCcH---HHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            456677666   78999999999999888532 2234568999999999999999998654

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.58  E-value=7.7e-05  Score=54.97  Aligned_cols=25  Identities=40%  Similarity=0.612  Sum_probs=22.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +|+|.|++|+||||+|..+...+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6899999999999999999998764

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.56  E-value=0.00014  Score=62.54  Aligned_cols=58  Identities=22%  Similarity=0.334  Sum_probs=46.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++++|..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+.+.+.
T Consensus        14 la~KyRP~~f---~dliGq~~~v~~L~~~~~~g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~   71 (598)
T PRK09111         14 LARKYRPQTF---DDLIGQEAMVRTLTNAFETG-RIAQAFMLTGVRGVGKTTTARILARALN   71 (598)
T ss_pred             HHhhhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhhC
Confidence            4556677666   78999999999998888532 2245688999999999999999999764

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.55  E-value=0.00014  Score=55.03  Aligned_cols=30  Identities=37%  Similarity=0.519  Sum_probs=26.7

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+.+|||-|.+|+||||+|+.+++.+..+
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            456899999999999999999999988755

>PTZ00301 uridine kinase; Provisional

Probab=97.55  E-value=0.00012  Score=55.03  Aligned_cols=27  Identities=22%  Similarity=0.561  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+|||.|.+|+||||||..+.+++..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~   29 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMA   29 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHh
Confidence            478999999999999999999877643

>PRK08727 hypothetical protein; Validated

Probab=97.54  E-value=0.00063  Score=51.71  Aligned_cols=36  Identities=25%  Similarity=0.178  Sum_probs=28.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ...+.++|++|+|||+|+.++++..........|+.
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~   76 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP   76 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            356899999999999999999997665544555654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.54  E-value=0.00015  Score=61.39  Aligned_cols=58  Identities=21%  Similarity=0.233  Sum_probs=44.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.+..++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~k~rP~~f---~divGq~~v~~~L~~~i~~~-~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~   63 (527)
T PRK14969          6 LARKWRPKSF---SELVGQEHVVRALTNALEQQ-RLHHAYLFTGTRGVGKTTLARILAKSLN   63 (527)
T ss_pred             HHHHhCCCcH---HHhcCcHHHHHHHHHHHHcC-CCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4456666665   78999999999888888532 2234567899999999999999988653

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.52  E-value=0.00013  Score=62.97  Aligned_cols=59  Identities=24%  Similarity=0.273  Sum_probs=46.4

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCC---CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGS---AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~---~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++++|...   .+++|.+..+..+..++....   ...+++.++|++|+||||+++.++..+.
T Consensus        74 W~eKyrP~~l---del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        74 WVEKYKPETQ---HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             hHHHhCCCCH---HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            5666666655   789999999999998885432   2345789999999999999999998653

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.52  E-value=0.00016  Score=61.83  Aligned_cols=50  Identities=22%  Similarity=0.256  Sum_probs=40.7

Q ss_pred             CccchHHHHHHHHHHhh----cCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           47 DLVGVERHIKQTEPLLC----TGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~----~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++|.++.++.+...|.    .-...-+++.++||+|+||||||+.+...+..+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            57999999999888762    223456799999999999999999999976554

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.52  E-value=0.00019  Score=61.55  Aligned_cols=58  Identities=19%  Similarity=0.278  Sum_probs=45.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++++|..+   .+++|.+..++.|..++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~kyRP~~~---~eiiGq~~~~~~L~~~i~~~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~   63 (585)
T PRK14950          6 LYRKWRSQTF---AELVGQEHVVQTLRNAIAEG-RVAHAYLFTGPRGVGKTSTARILAKAVN   63 (585)
T ss_pred             HHHHhCCCCH---HHhcCCHHHHHHHHHHHHhC-CCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4567777766   78999999998888887532 2235567999999999999999998764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.52  E-value=0.00014  Score=63.14  Aligned_cols=57  Identities=28%  Similarity=0.318  Sum_probs=45.3

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++.+|..+   .+++|.+..++.|..++... .-.+.+.++|+.|+||||+|+.+...+
T Consensus         6 LarKYRP~tF---ddIIGQe~vv~~L~~ai~~~-rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691          6 LARKWRPKTF---ADLVGQEHVVKALQNALDEG-RLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHHhCCCCH---HHHcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4556677666   78999999999999888532 224567899999999999999998864

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.50  E-value=0.00021  Score=61.84  Aligned_cols=59  Identities=22%  Similarity=0.220  Sum_probs=45.4

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.++.+|..+   .+++|.+..+..|...+.... -.+.+-++|+.|+||||+|+.++..+..
T Consensus         6 La~KyRP~~f---~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c   64 (647)
T PRK07994          6 LARKWRPQTF---AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNC   64 (647)
T ss_pred             HHHHhCCCCH---HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            4556677666   889999999988888885322 2345678999999999999999886543

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.50  E-value=0.00026  Score=58.98  Aligned_cols=59  Identities=17%  Similarity=0.193  Sum_probs=46.3

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...++.+|..+   .+++|.+..+..+..++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 ~~~~kyRP~~~---~diiGq~~~v~~L~~~i~~~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~   64 (451)
T PRK06305          6 VSSRKYRPQTF---SEILGQDAVVAVLKNALRFN-RAAHAYLFSGIRGTGKTTLARIFAKALN   64 (451)
T ss_pred             HHHHHhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            35667777766   78999999999888888532 2235678899999999999999988653

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.49  E-value=0.0002  Score=59.46  Aligned_cols=52  Identities=29%  Similarity=0.363  Sum_probs=39.3

Q ss_pred             CCccchHHHHHHHHHHhhc--CC---------CCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCT--GS---------AGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~~---------~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++.|.+.+++.+...+..  ..         ....-+.++|++|+|||++|+++++.....|
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~f  245 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATF  245 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCE
Confidence            5678999999888776531  11         2245677899999999999999999776554

>PF13173 AAA_14: AAA domain

Probab=97.48  E-value=0.00034  Score=48.12  Aligned_cols=35  Identities=23%  Similarity=0.299  Sum_probs=26.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+++.|.|+.|+|||||+..++.+.. .....+++.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~   36 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN   36 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec
Confidence            35788999999999999999988665 334455554

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.48  E-value=0.00014  Score=54.10  Aligned_cols=26  Identities=38%  Similarity=0.667  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|+|.|++|+|||||+..++..+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999876

>PRK03839 putative kinase; Provisional

Probab=97.47  E-value=0.00011  Score=53.27  Aligned_cols=26  Identities=35%  Similarity=0.574  Sum_probs=22.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .|.|.|++|+||||+++.++++..-.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~   27 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYE   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            47889999999999999999976443

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.45  E-value=0.00091  Score=56.55  Aligned_cols=51  Identities=27%  Similarity=0.322  Sum_probs=38.2

Q ss_pred             CCccchHHHHHHHHHHhhc---C--------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT---G--------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+.+++.+...+..   .        -...+-+-++|++|+|||++|+++++.+...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~  243 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQR  243 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccc
Confidence            5678899988887665421   0        1224567899999999999999999987554

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.44  E-value=0.00055  Score=52.10  Aligned_cols=45  Identities=16%  Similarity=0.274  Sum_probs=30.3

Q ss_pred             ccch-HHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           48 LVGV-ERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        48 ~vGr-~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++|. ...+..+.++..  ....+.+-+||++|+|||+|+..+++...
T Consensus        25 ~~~~n~~a~~~l~~~~~--~~~~~~l~l~Gp~G~GKThLl~a~~~~~~   70 (235)
T PRK08084         25 YPGDNDSLLAALQNALR--QEHSGYIYLWSREGAGRSHLLHAACAELS   70 (235)
T ss_pred             ccCccHHHHHHHHHHHh--CCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4452 233444455543  22345788999999999999999998654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.44  E-value=0.00083  Score=52.38  Aligned_cols=29  Identities=28%  Similarity=0.460  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+++.++|++|+||||.+..++..+...
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~   99 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQ   99 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46899999999999999998887765443

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.43  E-value=0.00049  Score=50.35  Aligned_cols=36  Identities=28%  Similarity=0.227  Sum_probs=26.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      -.-+.++|++|+|||.||.++.+....+=..+.|+.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            356889999999999999999997655544556665

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.42  E-value=0.00015  Score=50.12  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            57789999999999999998654

...

>PRK08233 hypothetical protein; Provisional

Probab=97.42  E-value=0.00014  Score=52.32  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|+|.|++|+||||||..+...+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            36899999999999999999998653

>PRK06217 hypothetical protein; Validated

Probab=97.42  E-value=0.00051  Score=50.09  Aligned_cols=34  Identities=21%  Similarity=0.389  Sum_probs=26.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc-C--CcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH-F--EGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~-f--~~~~~v~  104 (144)
                      .|.|.|++|+||||+|+.+...+.-. |  |...|..
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeecc
Confidence            48899999999999999999976432 2  4555543

>PRK06762 hypothetical protein; Provisional

Probab=97.41  E-value=0.00016  Score=51.61  Aligned_cols=24  Identities=38%  Similarity=0.525  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|.|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998875

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.41  E-value=0.00029  Score=55.81  Aligned_cols=64  Identities=19%  Similarity=0.144  Sum_probs=49.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc--cCCcEE
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE--HFEGSY  101 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~--~f~~~~  101 (144)
                      ++++.+|..+   .+++|.+..++-|.+.+..  ...++.-.||++|+|||+-|.+++..+..  .|.+++
T Consensus        26 wteKYrPkt~---de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rv   91 (346)
T KOG0989|consen   26 WTEKYRPKTF---DELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRV   91 (346)
T ss_pred             hHHHhCCCcH---HhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccch
Confidence            5666666666   7899999888888777643  56778889999999999999999887543  255443

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.00025  Score=61.45  Aligned_cols=52  Identities=23%  Similarity=0.344  Sum_probs=41.0

Q ss_pred             CccchHHHHHHHHHHhhcC----CCCeEEEEEEccCCCchHHHHHHHHHHhhccCC
Q 032234           47 DLVGVERHIKQTEPLLCTG----SAGVYILGIWGIGGIGKTTIADAVFNKISEHFE   98 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~----~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~   98 (144)
                      +-.|.++-++.+...|.-.    .-.=++++++||||+|||+|++.++..+...|-
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkfv  379 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFV  379 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEE
Confidence            5689888888887776421    223479999999999999999999998876664

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.40  E-value=0.00035  Score=58.68  Aligned_cols=58  Identities=21%  Similarity=0.224  Sum_probs=44.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..+..+..++... .-.+.+-++|+.|+||||+|+.++..+.
T Consensus         6 ~~~kyRP~~f---~diiGq~~i~~~L~~~i~~~-~i~hayLf~Gp~G~GKTtlAr~lAk~L~   63 (486)
T PRK14953          6 FARKYRPKFF---KEVIGQEIVVRILKNAVKLQ-RVSHAYIFAGPRGTGKTTIARILAKVLN   63 (486)
T ss_pred             HHHhhCCCcH---HHccChHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556667666   78999999999998888532 2234567899999999999999988653

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.39  E-value=0.00026  Score=62.93  Aligned_cols=58  Identities=19%  Similarity=0.205  Sum_probs=46.0

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.+++++..+   .+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+.+.+.
T Consensus         5 l~~KyRP~~f---~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~   62 (824)
T PRK07764          5 LYRRYRPATF---AEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLN   62 (824)
T ss_pred             HHHHhCCCCH---HHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4567777766   789999998888988885322 234578999999999999999998764

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.38  E-value=0.00025  Score=56.73  Aligned_cols=35  Identities=23%  Similarity=0.412  Sum_probs=26.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh----ccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS----EHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~----~~f~~~~~v~  104 (144)
                      ++|-++||||+|||+|++++++++.    ..|.....+.
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE  216 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE  216 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE
Confidence            6888999999999999999999643    3354444443

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.38  E-value=0.00068  Score=50.16  Aligned_cols=37  Identities=22%  Similarity=0.198  Sum_probs=29.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .-.++-|+|++|+|||+++..+.......-...+|+.
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3568899999999999999988776555556777776

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.37  E-value=0.00039  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=20.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.++|++|+|||+||+.++..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999876

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.37  E-value=0.00093  Score=49.28  Aligned_cols=50  Identities=18%  Similarity=0.218  Sum_probs=29.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh-------ccCCcEEEEcccccccchhhHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS-------EHFEGSYFAHNVRDAEETDRIKDLQKQLLY  124 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~-------~~f~~~~~v~~~~~~s~~~~~~~l~~~ll~  124 (144)
                      +..|+|++|+||||++..+...+.       ..-...+.+.    ......+..+...+..
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~----~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVV----SPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEE----ESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceee----cCCchhHHHHHHHHHh
Confidence            678899999999987776666551       2333444443    3344555666666555

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.37  E-value=0.00089  Score=51.54  Aligned_cols=52  Identities=23%  Similarity=0.363  Sum_probs=38.0

Q ss_pred             CCCCCCccchHHHHHHHHHHhh-c-CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           42 QSHNKDLVGVERHIKQTEPLLC-T-GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        42 ~~~~~~~vGr~~~~~~l~~~l~-~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +....+++|.+.+++.+.+-.. . .......+-+||..|+|||+|++++.+..
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            3344789999999988754221 1 22345667789999999999999998854

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.35  E-value=0.0002  Score=51.76  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++|.|.|++|+||||+++.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998654

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>TIGR00235 udk uridine kinase

Probab=97.34  E-value=0.00026  Score=52.66  Aligned_cols=27  Identities=37%  Similarity=0.605  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .-.+|+|.|++|+|||||++.+...+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            357899999999999999999988653

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.34  E-value=0.00021  Score=50.89  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=23.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|.++|++|+||||+|+.+...+..
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l~~   30 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRLGY   30 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            47889999999999999999998743

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.34  E-value=0.00034  Score=61.18  Aligned_cols=58  Identities=17%  Similarity=0.264  Sum_probs=45.0

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.|...+... .-.+.+-++|+.|+||||+|+.++..+.
T Consensus         8 l~~KyRP~~f---~dIiGQe~~v~~L~~aI~~~-rl~HAYLF~GP~GtGKTt~AriLAk~Ln   65 (725)
T PRK07133          8 LYRKYRPKTF---DDIVGQDHIVQTLKNIIKSN-KISHAYLFSGPRGTGKTSVAKIFANALN   65 (725)
T ss_pred             HHHHhCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence            4556667666   78999999999998888532 2245567899999999999999988653

>PRK13947 shikimate kinase; Provisional

Probab=97.33  E-value=0.00019  Score=51.41  Aligned_cols=27  Identities=33%  Similarity=0.427  Sum_probs=23.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .|.|+|++|+||||+|+.+.+.+.-.|
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~   29 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGF   29 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCE
Confidence            478999999999999999999876543

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.33  E-value=0.00041  Score=56.95  Aligned_cols=51  Identities=20%  Similarity=0.224  Sum_probs=38.1

Q ss_pred             CCccchHHHHHHHHHHhhc--C---------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT--G---------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~---------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..++.+...+..  .         -...+-+.++|++|+|||+||+++++.....
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~  206 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT  206 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            5788999888887765421  1         1235678899999999999999999865443

>PRK05642 DNA replication initiation factor; Validated

Probab=97.32  E-value=0.0022  Score=48.76  Aligned_cols=36  Identities=17%  Similarity=0.433  Sum_probs=27.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ...+-|||..|+|||.|+.++++.....-..++|+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~   80 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP   80 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee
Confidence            357789999999999999999987654334455554

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.32  E-value=0.0024  Score=44.42  Aligned_cols=78  Identities=15%  Similarity=0.266  Sum_probs=46.3

Q ss_pred             CccchHHHHHHHHHH----hhc-CCCCeEEEEEEccCCCchHHHHHHHHHHh-----hccCCcEEEEcccccccchhhHH
Q 032234           47 DLVGVERHIKQTEPL----LCT-GSAGVYILGIWGIGGIGKTTIADAVFNKI-----SEHFEGSYFAHNVRDAEETDRIK  116 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~----l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~-----~~~f~~~~~v~~~~~~s~~~~~~  116 (144)
                      +++|+.-..+.+.+.    +.. .+...-+++.+|++|+|||.+++.+++.+     +..|-.. |+. ...++....+.
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~-f~~-~~hFP~~~~v~  103 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQ-FIA-THHFPHNSNVD  103 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceee-ecc-cccCCCchHHH
Confidence            567776555555443    332 24557899999999999999999888853     2333222 221 11134445555


Q ss_pred             HHHHHHHHHh
Q 032234          117 DLQKQLLYEL  126 (144)
Q Consensus       117 ~l~~~ll~~l  126 (144)
                      ....+|-+.|
T Consensus       104 ~Yk~~L~~~I  113 (127)
T PF06309_consen  104 EYKEQLKSWI  113 (127)
T ss_pred             HHHHHHHHHH
Confidence            5555554444

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.32  E-value=0.0005  Score=58.72  Aligned_cols=58  Identities=21%  Similarity=0.220  Sum_probs=45.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.+.+.+.... -.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~k~rP~~f---~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~   63 (559)
T PRK05563          6 LYRKWRPQTF---EDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVN   63 (559)
T ss_pred             HHHHhCCCcH---HhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556677766   889999999999988886432 245567899999999999999988653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.31  E-value=0.00042  Score=59.20  Aligned_cols=58  Identities=16%  Similarity=0.089  Sum_probs=45.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++.+|..+   .+++|.+..+..+..++... .-.+.+-++|+.|+||||+|+.++..+.
T Consensus         6 l~~kyRP~~f---~diiGqe~iv~~L~~~i~~~-~i~hayLf~Gp~G~GKTt~Ar~lAk~L~   63 (563)
T PRK06647          6 TATKRRPRDF---NSLEGQDFVVETLKHSIESN-KIANAYIFSGPRGVGKTSSARAFARCLN   63 (563)
T ss_pred             HHHHhCCCCH---HHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence            3456666666   78999999999998888532 2345678999999999999999998754

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.31  E-value=0.001  Score=54.98  Aligned_cols=52  Identities=23%  Similarity=0.249  Sum_probs=38.3

Q ss_pred             CCccchHHHHHHHHHHhhcC------------CCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCTG------------SAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~------------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .+++|++..+..+.-.+...            ....+.|-++|++|+|||++|+.+...+...|
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~f   75 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   75 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            46899988888775433211            11246788999999999999999999876654

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.28  E-value=0.00053  Score=58.74  Aligned_cols=58  Identities=21%  Similarity=0.266  Sum_probs=45.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.|.+++... .-.+.+-++|+.|+||||+|+.+...+.
T Consensus         6 l~~k~RP~~f---~~iiGq~~v~~~L~~~i~~~-~~~hayLf~Gp~G~GKtt~A~~lak~l~   63 (576)
T PRK14965          6 LARKYRPQTF---SDLTGQEHVSRTLQNAIDTG-RVAHAFLFTGARGVGKTSTARILAKALN   63 (576)
T ss_pred             HHHHhCCCCH---HHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence            3456677666   78999998888888888532 2245567899999999999999988754

>PRK00625 shikimate kinase; Provisional

Probab=97.28  E-value=0.00024  Score=51.83  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .|.++||+|+||||+++.+.+++.-
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~   26 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSL   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3778999999999999999887643

>PRK04040 adenylate kinase; Provisional

Probab=97.28  E-value=0.00034  Score=51.63  Aligned_cols=25  Identities=28%  Similarity=0.594  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|+|++|+||||+++.+...+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5789999999999999999998873

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.26  E-value=0.00072  Score=51.12  Aligned_cols=30  Identities=30%  Similarity=0.400  Sum_probs=25.5

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .....+++|.|+.|+|||||++.+...+..
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            345789999999999999999999886543

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.26  E-value=0.00044  Score=55.82  Aligned_cols=48  Identities=25%  Similarity=0.349  Sum_probs=35.9

Q ss_pred             CCccchHHHHHHHHHHhhcC---C--------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTG---S--------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~---~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++=|.+++++++...+...   .        +.++=+-+||++|+|||-||++++++.
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            45667899999887654311   1        235667789999999999999999853

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.25  E-value=0.00059  Score=58.93  Aligned_cols=60  Identities=18%  Similarity=0.131  Sum_probs=46.3

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++.++++..+   .+++|.+..+..|..++.... -.+.+-++|+.|+||||+|+.++..+..
T Consensus         5 pl~~kyRP~~f---~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c   64 (620)
T PRK14948          5 PLHHKYRPQRF---DELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNC   64 (620)
T ss_pred             hHHHHhCCCcH---hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcC
Confidence            34566666665   789999999999988886332 2356778999999999999999997643

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.25  E-value=0.0011  Score=48.08  Aligned_cols=47  Identities=23%  Similarity=0.261  Sum_probs=31.1

Q ss_pred             ccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           48 LVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++|....+.++.+.+..-......|-|+|..|+||+.+|+.+++...
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~   47 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSP   47 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCST
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhh
Confidence            46666677776665543222224455999999999999999999543

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.0008  Score=57.75  Aligned_cols=56  Identities=20%  Similarity=0.255  Sum_probs=41.9

Q ss_pred             CCccchHHHHHHHHHHhhcC--C--------CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEE
Q 032234           46 KDLVGVERHIKQTEPLLCTG--S--------AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSY  101 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~--~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~  101 (144)
                      .++=|.+..+.+|..++..-  .        ...+=+-+||++|+|||.||+++++.+.-.|-...
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~is  255 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSIS  255 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeec
Confidence            56778999888888776421  1        12455678999999999999999998776665443

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.24  E-value=0.00023  Score=47.71  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |-|+|++|+|||+||..+...+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999776543

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.00055  Score=59.57  Aligned_cols=52  Identities=29%  Similarity=0.402  Sum_probs=41.7

Q ss_pred             CccchHHHHHHHHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC
Q 032234           47 DLVGVERHIKQTEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE   98 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~   98 (144)
                      +-.|+++-++.+..++.-    .+.+=.+++.+|++|+|||++|+.|+..+...|.
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFf  467 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFF  467 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceE
Confidence            568998888888777642    2345679999999999999999999998876654

>PRK06526 transposase; Provisional

Probab=97.23  E-value=0.00048  Score=53.22  Aligned_cols=35  Identities=23%  Similarity=0.128  Sum_probs=25.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ...+.++|++|+|||+||..+.......-..+.|+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~  132 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFA  132 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhh
Confidence            34678999999999999999988654432333343

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.22  E-value=0.00055  Score=59.01  Aligned_cols=58  Identities=19%  Similarity=0.129  Sum_probs=45.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++++|..+   .+++|.+..+..|.+++... .-.+.+-++|+.|+||||+|+.+.+.+.
T Consensus         6 la~KyRP~sf---~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~   63 (624)
T PRK14959          6 LTARYRPQTF---AEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALN   63 (624)
T ss_pred             HHHHhCCCCH---HHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhcc
Confidence            4566677666   78999998888888887532 2246778899999999999999998764

>PRK08181 transposase; Validated

Probab=97.22  E-value=0.00087  Score=52.26  Aligned_cols=35  Identities=26%  Similarity=0.200  Sum_probs=28.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..+.++|++|+|||.||.++.+........+.|+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            45889999999999999999997765555566665

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.21  E-value=0.00025  Score=52.21  Aligned_cols=23  Identities=43%  Similarity=0.774  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998865

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.21  E-value=0.00072  Score=48.66  Aligned_cols=34  Identities=26%  Similarity=0.424  Sum_probs=27.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .+|=+.|.+|+||||||+.+..++...-....++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence            4677889999999999999999987766666665

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=97.21  E-value=0.00073  Score=55.86  Aligned_cols=52  Identities=21%  Similarity=0.239  Sum_probs=39.1

Q ss_pred             CCccchHHHHHHHHHHhhcC--------C----CCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCTG--------S----AGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~--------~----~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ..++|++..+..+...+...        .    .....|-++|++|+||||||+.+...+...|
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~f   78 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChh
Confidence            46899999888886655320        0    1136788999999999999999999776544

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.21  E-value=0.00033  Score=43.26  Aligned_cols=23  Identities=35%  Similarity=0.569  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|.|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46889999999999999999885

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK06547 hypothetical protein; Provisional

Probab=97.21  E-value=0.00074  Score=49.21  Aligned_cols=28  Identities=36%  Similarity=0.444  Sum_probs=24.4

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .....+|+|.|++|+||||+|..+....
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3457899999999999999999998864

>CHL00181 cbbX CbbX; Provisional

Probab=97.21  E-value=0.00071  Score=53.15  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+.++|++|+||||+|+.++...
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            357789999999999999997753

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.20  E-value=0.0019  Score=48.44  Aligned_cols=47  Identities=23%  Similarity=0.233  Sum_probs=33.2

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |-.+|...-..-.++-|+|.+|+|||++|..++......-..++|+.
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            33344322233568899999999999999998876655556677775

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=97.19  E-value=0.00028  Score=49.25  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=19.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      +-++|.+|+||||+|+.++..+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeE
Confidence            5689999999999999999977666644

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.19  E-value=0.0013  Score=50.61  Aligned_cols=49  Identities=14%  Similarity=0.131  Sum_probs=32.8

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..+.++..........+.++|.+|+|||+||.++++.+...-..++++.
T Consensus        86 ~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         86 SKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             HHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3344444322233457789999999999999999997755444555554

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.18  E-value=0.00055  Score=50.05  Aligned_cols=24  Identities=42%  Similarity=0.643  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|+|.|.+|+||||||..+...+.
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999988754

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.18  E-value=0.00048  Score=53.83  Aligned_cols=47  Identities=28%  Similarity=0.364  Sum_probs=36.1

Q ss_pred             CCccchHHHHHH---HHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           46 KDLVGVERHIKQ---TEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        46 ~~~vGr~~~~~~---l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ++++|.+..+++   +...|..    .+...+-+-.+|++|+|||.+|+++.+.
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane  174 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE  174 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc
Confidence            578999987765   3344432    2456888999999999999999998874

>TIGR00763 lon ATP-dependent protease La

Probab=97.17  E-value=0.0007  Score=59.87  Aligned_cols=51  Identities=24%  Similarity=0.404  Sum_probs=38.1

Q ss_pred             CccchHHHHHHHHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           47 DLVGVERHIKQTEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +.+|.+..++.+..++..    ....-.++.++|++|+|||++|+.+++.+...|
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            477888888887765531    122335788999999999999999999875554

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.17  E-value=0.00034  Score=48.49  Aligned_cols=25  Identities=36%  Similarity=0.506  Sum_probs=21.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +|.|.|++|+||||+|+.+.....-
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~~   25 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLGL   25 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999987643

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.17  E-value=0.0024  Score=52.61  Aligned_cols=27  Identities=26%  Similarity=0.341  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|+++|++|+||||++..++..+.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~  266 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH  266 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            357999999999999999999987654

>cd01394 radB RadB

Probab=97.17  E-value=0.0024  Score=47.60  Aligned_cols=47  Identities=21%  Similarity=0.233  Sum_probs=31.3

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |..+|...-..-.++.|+|.+|+|||||+..++......-...+|+.
T Consensus         8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            44444322234578889999999999999998876544334455553

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.17  E-value=0.00041  Score=50.19  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4788999999999999999988653

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.15  E-value=0.0008  Score=48.52  Aligned_cols=26  Identities=38%  Similarity=0.455  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+|.+.|++|+||||+|+.+...+.
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35889999999999999999998764

>PRK14974 cell division protein FtsY; Provisional

Probab=97.15  E-value=0.0039  Score=50.13  Aligned_cols=29  Identities=21%  Similarity=0.313  Sum_probs=23.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...+|.++|++|+||||++..++..+..+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            36799999999999999888887765443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.15  E-value=0.00094  Score=52.32  Aligned_cols=47  Identities=23%  Similarity=0.319  Sum_probs=30.9

Q ss_pred             CccchHHHHHHHHHH---hhcC----------CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           47 DLVGVERHIKQTEPL---LCTG----------SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~---l~~~----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +++|.+..++.+..+   +...          ......+.++|++|+||||+|+.++..+
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            468887766665443   2100          0112357799999999999998877754

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.15  E-value=0.0009  Score=56.84  Aligned_cols=56  Identities=20%  Similarity=0.147  Sum_probs=44.0

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.+|..+   .+++|.+..++.+...+... .-.+.+-++|+.|+||||+|+.+...+
T Consensus         5 ~~KyRP~~f---deiiGqe~v~~~L~~~I~~g-rl~hayLf~Gp~G~GKTt~Ar~LAk~L   60 (535)
T PRK08451          5 ALKYRPKHF---DELIGQESVSKTLSLALDNN-RLAHAYLFSGLRGSGKTSSARIFARAL   60 (535)
T ss_pred             HHHHCCCCH---HHccCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            456677666   78999999888888888532 224466899999999999999998865

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.15  E-value=0.00076  Score=55.60  Aligned_cols=51  Identities=22%  Similarity=0.224  Sum_probs=35.4

Q ss_pred             CCccchHHHHHHHHHHhh-------cC-----C--CCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLC-------TG-----S--AGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~-------~~-----~--~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|.+..++.+...+.       ..     +  ..-..+.++|++|+|||+||+.++..+...
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~p  135 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVP  135 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            358999988887743321       00     0  013567899999999999999998765433

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.15  E-value=0.00034  Score=50.61  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|.|.|++|+||||+|+.+..+.
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47799999999999999998865

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.14  E-value=0.00093  Score=57.88  Aligned_cols=70  Identities=14%  Similarity=0.175  Sum_probs=51.1

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEEcccccccchhhHHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFAHNVRDAEETDRIKDLQKQLLY  124 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v~~~~~~s~~~~~~~l~~~ll~  124 (144)
                      ++++|.+..++.+...+...    +.+.++|++|+||||+|+.+...+.. +++..+|+.+     .......+.+.+..
T Consensus        31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n-----p~~~~~~~~~~v~~  101 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN-----PEDPNNPKIRTVPA  101 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC-----CCcchHHHHHHHHH
Confidence            67899998888887766432    36889999999999999999987643 4688888874     33344455555543

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.14  E-value=0.00042  Score=48.51  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=21.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.++|++|+||||+|+.+...+.-
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~   25 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGL   25 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC
Confidence            678999999999999999987644

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.14  E-value=0.00034  Score=52.85  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|||.|.+|+||||+|+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            489999999999999999998764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.12  E-value=0.00067  Score=47.17  Aligned_cols=32  Identities=25%  Similarity=0.288  Sum_probs=23.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      +.|+|++|+||||++..+.......-...+|+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~   33 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYV   33 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEE
Confidence            67899999999999999988654433344444

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PHA00729 NTP-binding motif containing protein

Probab=97.12  E-value=0.00061  Score=51.84  Aligned_cols=27  Identities=37%  Similarity=0.365  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....|.|+|.+|+||||||..+.+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456788999999999999999998754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.12  E-value=0.00067  Score=59.55  Aligned_cols=51  Identities=22%  Similarity=0.242  Sum_probs=37.9

Q ss_pred             CCccchHHHHHHHHHHhhcC-----------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++.|.+..++.+.+++...           -...+.+.++|++|+||||||+.+++.....
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~  239 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY  239 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe
Confidence            45889998888887765311           1224567899999999999999999876443

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK13949 shikimate kinase; Provisional

Probab=97.11  E-value=0.00044  Score=50.13  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      -|.|+|++|+||||+++.++..+.-.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~   28 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLS   28 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            47899999999999999999876543

>PRK06921 hypothetical protein; Provisional

Probab=97.10  E-value=0.0011  Score=51.44  Aligned_cols=36  Identities=19%  Similarity=0.202  Sum_probs=29.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      ...+.++|.+|+|||+|+.++++.+... -..++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            5678899999999999999999987655 45566665

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=97.09  E-value=0.0037  Score=47.15  Aligned_cols=37  Identities=22%  Similarity=0.343  Sum_probs=27.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCC--cEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFE--GSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~--~~~~v~  104 (144)
                      ....+-|||..|+|||.|..++++.+.....  .++++.
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~   71 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS   71 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence            3456789999999999999999998765432  344553

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.09  E-value=0.0008  Score=56.50  Aligned_cols=49  Identities=24%  Similarity=0.272  Sum_probs=34.6

Q ss_pred             CCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.|.+..++.+..++..          .....+-+-++|++|+|||+||+++++...
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~  113 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG  113 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC
Confidence            4688988777666554321          012244577899999999999999988643

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.08  E-value=0.0021  Score=55.44  Aligned_cols=55  Identities=16%  Similarity=0.247  Sum_probs=41.7

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      ++++|.+..++.+...+...    +.+.++|++|+||||+++.+.+.+... |...+++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~   73 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP   73 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe
Confidence            57889998887777666432    255599999999999999999987554 55556665

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.08  E-value=0.0034  Score=49.63  Aligned_cols=47  Identities=23%  Similarity=0.241  Sum_probs=38.0

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.+..++.+...+.. ..-.+.+-++|+.|+||||+|..++..+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~-~~~~ha~Lf~G~~G~Gk~~la~~~a~~l   50 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIK-NRFSHAHIIVGEDGIGKSLLAKEIALKI   50 (313)
T ss_pred             hhccCcHHHHHHHHHHHHc-CCCCceEEeECCCCCCHHHHHHHHHHHH
Confidence            4688998888888888742 2234577899999999999999999965

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.07  E-value=0.0005  Score=56.01  Aligned_cols=31  Identities=39%  Similarity=0.575  Sum_probs=26.1

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .-+..+++||++|+|||.+|++++..+...|
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~~  176 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIEP  176 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCCe
Confidence            3467899999999999999999999765543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.07  E-value=0.0012  Score=54.15  Aligned_cols=49  Identities=22%  Similarity=0.199  Sum_probs=38.8

Q ss_pred             CCccchHHHHHHHHHHhhcCCC--------CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSA--------GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~--------~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++++|.+..++.|.+++.....        -.+.+-++|++|+||||+|..+...+.
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~   61 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQ   61 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            5688999988988888864321        245678999999999999999988653

>PRK06620 hypothetical protein; Validated

Probab=97.07  E-value=0.0012  Score=49.78  Aligned_cols=24  Identities=29%  Similarity=0.221  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.+-+||++|+|||+|++.+++..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568899999999999999987754

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.06  E-value=0.00054  Score=49.48  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.|++|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            368899999999999999988864

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=97.06  E-value=0.0012  Score=48.70  Aligned_cols=28  Identities=29%  Similarity=0.379  Sum_probs=24.3

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....++.|+|++|+||||||+.+...+.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3467999999999999999999998764

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.05  E-value=0.0023  Score=48.11  Aligned_cols=37  Identities=19%  Similarity=0.177  Sum_probs=27.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh-cc-----CCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS-EH-----FEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~-~~-----f~~~~~v~  104 (144)
                      .-.++.|+|++|+|||+|+..++-... ..     -...+|+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            356889999999999999998865422 11     25677776

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK13946 shikimate kinase; Provisional

Probab=97.05  E-value=0.00055  Score=50.04  Aligned_cols=28  Identities=18%  Similarity=0.248  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+.|.+.|++|+||||+++.+..++.-.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~   37 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLP   37 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3578999999999999999999987544

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.04  E-value=0.0027  Score=47.43  Aligned_cols=47  Identities=21%  Similarity=0.134  Sum_probs=31.3

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC------CcEEEEc
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF------EGSYFAH  104 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f------~~~~~v~  104 (144)
                      +..+|...-..-.++.|+|.+|+|||+|+..+.-.....-      ..++|+.
T Consensus         8 lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           8 LDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            3344432223356889999999999999998876543333      4566765

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.0022  Score=52.49  Aligned_cols=52  Identities=23%  Similarity=0.234  Sum_probs=38.4

Q ss_pred             CCccchHHHHHHHHHHh-----hcC-----CCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLL-----CTG-----SAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l-----~~~-----~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +++.|.++.++-|....     ..+     ....+-+-++|++|+|||-||++++......|
T Consensus       212 ~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTF  273 (491)
T KOG0738|consen  212 DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTF  273 (491)
T ss_pred             HhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeE
Confidence            67899988777765532     111     23466778899999999999999999766554

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.04  E-value=0.0013  Score=46.39  Aligned_cols=34  Identities=18%  Similarity=0.329  Sum_probs=25.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v  103 (144)
                      ++|.|+|..|+|||||++.+.+.+..+ +...++.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik   35 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIK   35 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEE
Confidence            478999999999999999999987654 4444333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.04  E-value=0.003  Score=56.03  Aligned_cols=54  Identities=17%  Similarity=0.113  Sum_probs=39.7

Q ss_pred             CCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           42 QSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        42 ~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |.....++-|....+.+.     .....+++.|.|++|.||||++......    +...+|++
T Consensus        10 p~~~~~~~~R~rl~~~l~-----~~~~~~~~~v~apaG~GKTtl~~~~~~~----~~~~~w~~   63 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLS-----GANNYRLVLVTSPAGYGKTTLISQWAAG----KNNLGWYS   63 (903)
T ss_pred             CCCccccCcchHHHHHHh-----cccCCCeEEEECCCCCCHHHHHHHHHHh----CCCeEEEe
Confidence            344467888876555443     2335789999999999999999987753    33789997

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=97.03  E-value=0.0005  Score=50.86  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|+|.|.+|+||||||+.+...+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999975

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.02  E-value=0.0016  Score=50.05  Aligned_cols=38  Identities=21%  Similarity=0.129  Sum_probs=33.5

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +.-+++.|+|.+|+|||+++..+......+.+.++|++
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            44678899999999999999998888777799999997

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.01  E-value=0.0005  Score=48.22  Aligned_cols=23  Identities=30%  Similarity=0.677  Sum_probs=20.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            36789999999999999998874

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.01  E-value=0.0029  Score=50.46  Aligned_cols=28  Identities=25%  Similarity=0.482  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+++++|++|+||||++..++..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~  140 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKA  140 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4679999999999999999998886543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.00  E-value=0.0032  Score=52.31  Aligned_cols=29  Identities=38%  Similarity=0.335  Sum_probs=25.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ...+-|+|++|+|||+|+.++++.+...+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~  176 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKN  176 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhC
Confidence            45688999999999999999999876654

>CHL00176 ftsH cell division protein; Validated

Probab=96.99  E-value=0.00075  Score=58.47  Aligned_cols=48  Identities=23%  Similarity=0.273  Sum_probs=34.8

Q ss_pred             CCccchHHHHHHHHHHhhc--CC--------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCT--GS--------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.++.++.+..++..  ..        ...+-+-++|++|+|||+||++++...
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~  240 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  240 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4688988877776655421  11        124567899999999999999998854

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.99  E-value=0.0031  Score=48.96  Aligned_cols=40  Identities=28%  Similarity=0.444  Sum_probs=27.8

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+.+.+.....+..+|||.|+||+||+||...+...+..
T Consensus        16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            3344334334456789999999999999999988876544

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK14530 adenylate kinase; Provisional

Probab=96.99  E-value=0.00069  Score=50.66  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .|.|.|++|+||||+|+.+.....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999988653

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.98  E-value=0.0025  Score=46.15  Aligned_cols=25  Identities=28%  Similarity=0.509  Sum_probs=22.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +|.|.|+.|+||||+++.+++.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6889999999999999999997643

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.98  E-value=0.0042  Score=49.26  Aligned_cols=36  Identities=28%  Similarity=0.335  Sum_probs=28.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..-+-++|..|+|||.||.++++.+...-..+.|+.
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~  191 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH  191 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            456789999999999999999998765544455564

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.98  E-value=0.00098  Score=55.96  Aligned_cols=45  Identities=22%  Similarity=0.149  Sum_probs=35.6

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|+++.++.+...+..+    ..+-++|++|+|||+||+.++....
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhc
Confidence            35899999888876655322    3567899999999999999998653

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.98  E-value=0.0071  Score=47.47  Aligned_cols=76  Identities=14%  Similarity=0.212  Sum_probs=48.7

Q ss_pred             HHHHHHHHhhcCC-CCeEEEEEEccCCCchHHHHHHHHHHhhccC---CcEEEEcccccccchhhHHHHHHHHHHHhhCC
Q 032234           54 HIKQTEPLLCTGS-AGVYILGIWGIGGIGKTTIADAVFNKISEHF---EGSYFAHNVRDAEETDRIKDLQKQLLYELLND  129 (144)
Q Consensus        54 ~~~~l~~~l~~~~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f---~~~~~v~~~~~~s~~~~~~~l~~~ll~~l~~~  129 (144)
                      -.+.+.+.+...+ ....+|+|.|.=|+||||+.+.+.+.+....   ...+++..-.......-...+...+...+...
T Consensus         4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~~~   83 (325)
T PF07693_consen    4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLEKH   83 (325)
T ss_pred             HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHHHh
Confidence            3456667776433 6688999999999999999999999876651   12222321111333444566666776666554

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.97  E-value=0.0006  Score=49.18  Aligned_cols=24  Identities=29%  Similarity=0.540  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|+|+.|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            468999999999999999998843

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.97  E-value=0.0022  Score=50.15  Aligned_cols=52  Identities=23%  Similarity=0.362  Sum_probs=37.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQKQLL  123 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~l~~~ll  123 (144)
                      .-++|.|.+|+|||||+..+++.+..+|+..+++.-+.+-.  ..+..+.+.+.
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~--~Ev~e~~~~~~  121 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERT--REGNDLYHEMK  121 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCc--HHHHHHHHHHH
Confidence            46789999999999999999999887887777766444332  34444444443

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PRK04182 cytidylate kinase; Provisional

Probab=96.96  E-value=0.00078  Score=48.28  Aligned_cols=24  Identities=42%  Similarity=0.545  Sum_probs=21.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|+.|+||||+|+.+..++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            688999999999999999998764

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.96  E-value=0.00053  Score=48.79  Aligned_cols=23  Identities=35%  Similarity=0.655  Sum_probs=20.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |.++|++|+||||+|..+.....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~   23 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcC
Confidence            46889999999999999988753

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.95  E-value=0.0024  Score=51.27  Aligned_cols=30  Identities=30%  Similarity=0.518  Sum_probs=25.5

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .....+|+|.|++|+|||||+..+...+..
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~~l~~   82 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGMHLIE   82 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456789999999999999999998776554

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.0055  Score=48.77  Aligned_cols=83  Identities=24%  Similarity=0.307  Sum_probs=57.1

Q ss_pred             CCccchHHHHHHHHHHhhcC--C---------CCeEEEEEEccCCCchHHHHHHHHHHhh--------------------
Q 032234           46 KDLVGVERHIKQTEPLLCTG--S---------AGVYILGIWGIGGIGKTTIADAVFNKIS--------------------   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~--~---------~~~~~i~I~G~gGiGKTtLa~~v~~~~~--------------------   94 (144)
                      .++=|.+.+++++.......  .         ....=+.+||.+|+|||-||++++|...                    
T Consensus       185 ~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGp  264 (440)
T KOG0726|consen  185 ADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGP  264 (440)
T ss_pred             cccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccch
Confidence            45678899999887654321  1         2345667899999999999999988422                    


Q ss_pred             -----------ccCCcEEEEcccccc------cchhhHHHHHHHHHHHhhC
Q 032234           95 -----------EHFEGSYFAHNVRDA------EETDRIKDLQKQLLYELLN  128 (144)
Q Consensus        95 -----------~~f~~~~~v~~~~~~------s~~~~~~~l~~~ll~~l~~  128 (144)
                                 ++-...+|+..+..+      +++.+-..+|+.+|+.+.+
T Consensus       265 klvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQ  315 (440)
T KOG0726|consen  265 KLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQ  315 (440)
T ss_pred             HHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHh
Confidence                       123467888765433      4566778888888766554

>PRK08116 hypothetical protein; Validated

Probab=96.94  E-value=0.0012  Score=51.29  Aligned_cols=34  Identities=32%  Similarity=0.435  Sum_probs=27.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+.+||.+|+|||.||.++++.+..+....+++.
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~  149 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN  149 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            4779999999999999999998766544555554

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.94  E-value=0.0018  Score=48.65  Aligned_cols=42  Identities=31%  Similarity=0.321  Sum_probs=31.2

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++++|.+..++.+.-...    +.+-+-++|++|+|||++|+.+..
T Consensus         3 ~dI~GQe~aKrAL~iAAa----G~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAA----GGHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHH----CC--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHc----CCCCeEEECCCCCCHHHHHHHHHH
Confidence            578999988877753332    235788999999999999999987

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.93  E-value=0.0048  Score=51.09  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=21.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.++.++|++|+||||++..++....
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999988877554

>PRK05439 pantothenate kinase; Provisional

Probab=96.93  E-value=0.002  Score=51.28  Aligned_cols=28  Identities=32%  Similarity=0.411  Sum_probs=24.4

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+|||.|.+|+||||+|..+...+.
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4578999999999999999999888554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.93  E-value=0.0022  Score=51.80  Aligned_cols=53  Identities=30%  Similarity=0.209  Sum_probs=41.3

Q ss_pred             CCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           42 QSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        42 ~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.....++|.+...+.+...+... .-.+.+-++|+.|+||||+|..+...+..
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~g-rl~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREG-KLHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcC-CCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            344478999999988888887532 23456889999999999999999887543

>PRK09183 transposase/IS protein; Provisional

Probab=96.92  E-value=0.0014  Score=50.74  Aligned_cols=34  Identities=24%  Similarity=0.159  Sum_probs=24.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ..+.|+|++|+|||+||.++.......-..+.|+
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~  136 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFT  136 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            4577999999999999999987644333333344

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.92  E-value=0.0008  Score=49.60  Aligned_cols=24  Identities=25%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|+|+|+.|+|||||++.++...
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998864

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.92  E-value=0.0013  Score=55.84  Aligned_cols=58  Identities=19%  Similarity=0.227  Sum_probs=40.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcC---CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTG---SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~---~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.++..|...   .+++--..-++++..||...   ....+++.+.|++|+||||.++.+++.+
T Consensus         9 W~~ky~P~~~---~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen    9 WVEKYAPKTL---DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             cchhcCCCCH---HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            3344444433   44555556678888888642   2335688999999999999999999975

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.91  E-value=0.0021  Score=57.52  Aligned_cols=50  Identities=16%  Similarity=0.279  Sum_probs=37.7

Q ss_pred             CCccchHHHHHHHHHHhhcC-----CC--CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----SA--GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----~~--~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++|.+..++.+...+...     +.  ...++.++|++|+|||+||+.+++.+..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~  624 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFD  624 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhc
Confidence            46889999888887665421     11  2347889999999999999999986643

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.91  E-value=0.0088  Score=49.74  Aligned_cols=29  Identities=24%  Similarity=0.277  Sum_probs=24.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...+|.++|++|+||||.+..++..+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46789999999999999999998866543

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.91  E-value=0.0023  Score=51.31  Aligned_cols=35  Identities=17%  Similarity=0.290  Sum_probs=28.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..+.++|.+|+|||+||.++++.+...-..++|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            67889999999999999999997655544556665

>PRK13975 thymidylate kinase; Provisional

Probab=96.90  E-value=0.001  Score=48.58  Aligned_cols=26  Identities=35%  Similarity=0.418  Sum_probs=23.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|.|.|+.|+||||+++.++..+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47889999999999999999998753

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

Probab=96.89  E-value=0.0018  Score=48.11  Aligned_cols=35  Identities=17%  Similarity=0.226  Sum_probs=24.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      +++|.++|+.|+||||.+-.++.....+-.....+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~li   35 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALI   35 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceee
Confidence            36899999999999998887777654443334444

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.88  E-value=0.00077  Score=47.15  Aligned_cols=23  Identities=22%  Similarity=0.520  Sum_probs=20.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.|+|+.|+|||||++.+.....
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            68899999999999999988643

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK13948 shikimate kinase; Provisional

Probab=96.88  E-value=0.00094  Score=49.16  Aligned_cols=29  Identities=24%  Similarity=0.273  Sum_probs=24.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ....|.++|+.|+||||+++.+...+...
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~~   37 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALMLH   37 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            34678899999999999999999876544

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.88  E-value=0.0013  Score=51.86  Aligned_cols=28  Identities=32%  Similarity=0.360  Sum_probs=23.7

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+.+|||.|+.|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999999988766543

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.87  E-value=0.0018  Score=56.88  Aligned_cols=51  Identities=24%  Similarity=0.241  Sum_probs=36.1

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..++.+...+..           .-...+-+-++|++|+|||+||+++++.....
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~  514 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN  514 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            4577888877777665431           11224457889999999999999999865443

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.87  E-value=0.0014  Score=50.13  Aligned_cols=25  Identities=32%  Similarity=0.619  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +|.++|++|+||||+|+.+...+..
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3678999999999999999887654

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.87  E-value=0.0021  Score=57.02  Aligned_cols=51  Identities=24%  Similarity=0.352  Sum_probs=39.7

Q ss_pred             CccchHHHHHHHHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           47 DLVGVERHIKQTEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +.+|.+..++.+..++..    ....-.++.++|++|+||||+++.++..+...|
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~  377 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKY  377 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            578999988888877642    122345789999999999999999998765544

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.86  E-value=0.0025  Score=44.65  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.+|.+.|.-|+||||+++.+...+
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3478999999999999999999864

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.86  E-value=0.0097  Score=49.37  Aligned_cols=28  Identities=21%  Similarity=0.242  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+|.++|++|+||||++..++..+..
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~  126 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQR  126 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3679999999999999999988775543

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

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.86  E-value=0.0019  Score=47.89  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.|+.|+||||++..+...+..+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~   28 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN   28 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            368899999999999999887765433

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.86  E-value=0.0021  Score=53.00  Aligned_cols=50  Identities=18%  Similarity=0.155  Sum_probs=35.4

Q ss_pred             CCccchHHHHHHHHHHh-------hc---CC--C----CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLL-------CT---GS--A----GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l-------~~---~~--~----~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++|.+..++.+...+       ..   ..  +    .-..+.++|++|+|||++|+.++..+..
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~  142 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNV  142 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCC
Confidence            46799998888775433       11   01  1    1246889999999999999999876543

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.85  E-value=0.0082  Score=46.88  Aligned_cols=49  Identities=24%  Similarity=0.182  Sum_probs=36.4

Q ss_pred             CccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           47 DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +++|.+.....+..+........+.+-++|++|+||||+|..+.+.+..
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~   50 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLC   50 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhC
Confidence            4567777777777776533323344889999999999999999997653

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.85  E-value=0.001  Score=48.27  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|.++|+.|+||||+++.+.....-
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~~   30 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLNM   30 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcCC
Confidence            46889999999999999999987543

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.84  E-value=0.0011  Score=47.55  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=21.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .|.++|++|+||||+++.+.+.+.-
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~   28 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGY   28 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4778999999999999999987644

>COG3899 Predicted ATPase [General function prediction only]

Probab=96.84  E-value=0.0065  Score=54.37  Aligned_cols=82  Identities=20%  Similarity=0.286  Sum_probs=53.3

Q ss_pred             ccchHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc---CCcEEEEcccccccchhhHHHHHHHHH
Q 032234           48 LVGVERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKISEH---FEGSYFAHNVRDAEETDRIKDLQKQLL  123 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~---f~~~~~v~~~~~~s~~~~~~~l~~~ll  123 (144)
                      ++||+.+++.|...+.. ....-.++.+.|..|+|||+|+..++..+...   |-...|-. ....++-..+....+++.
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q-~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQ-FERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhccc-ccCCCchHHHHHHHHHHH
Confidence            78999999998777654 33446699999999999999999999976443   22221111 111233344555566666


Q ss_pred             HHhhCCC
Q 032234          124 YELLNDR  130 (144)
Q Consensus       124 ~~l~~~~  130 (144)
                      .+++.+.
T Consensus        81 ~~ll~~~   87 (849)
T COG3899          81 GQLLSES   87 (849)
T ss_pred             HHHhhcc
Confidence            6664443

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.84  E-value=0.0098  Score=45.96  Aligned_cols=37  Identities=27%  Similarity=0.203  Sum_probs=29.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ...-+.++|.+|+|||.||.++.+++...--.+.|+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~  140 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT  140 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence            5667889999999999999999998874434555554

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.84  E-value=0.0021  Score=49.65  Aligned_cols=25  Identities=36%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+-++|++|+|||+||+.++.....
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~lg~   47 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKRDR   47 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4458999999999999999986543

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.83  E-value=0.00086  Score=49.03  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++.|+|+.|+|||||++.++...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            67899999999999999997754

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.83  E-value=0.0014  Score=48.01  Aligned_cols=28  Identities=25%  Similarity=0.361  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+++|+|..|+|||||++.+...+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            3568999999999999999999887654

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.83  E-value=0.0033  Score=51.06  Aligned_cols=51  Identities=22%  Similarity=0.110  Sum_probs=39.7

Q ss_pred             CCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           42 QSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        42 ~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |....+++|.+...+.+.+.+... .-.+.+-++|+.|+||+|+|..+...+
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSG-RLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            334468999999888888877532 224468899999999999999988865

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.82  E-value=0.0011  Score=48.62  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+|+.+.+++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999974

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.82  E-value=0.0016  Score=47.44  Aligned_cols=32  Identities=22%  Similarity=0.366  Sum_probs=27.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGS  100 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~  100 (144)
                      .+++.|+|+.|+|||||+..+.......|...
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~   33 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRV   33 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccc
Confidence            36788999999999999999999887777433

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.82  E-value=0.0013  Score=49.03  Aligned_cols=28  Identities=21%  Similarity=0.338  Sum_probs=23.1

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .....+.|.|.|++|+|||||+..+...
T Consensus         9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          9 KPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3445678889999999999999998753

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.81  E-value=0.0019  Score=46.53  Aligned_cols=33  Identities=24%  Similarity=0.110  Sum_probs=23.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +.|.|++|+|||+|+..+.......=..++|++
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            568999999999999887664333334455554

A related protein is found in archaea.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.81  E-value=0.0063  Score=50.57  Aligned_cols=36  Identities=22%  Similarity=0.287  Sum_probs=27.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC-C-cEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF-E-GSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f-~-~~~~v~  104 (144)
                      ...+-+||++|+|||+|+.++++.+...+ . ...|+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~  167 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT  167 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence            45688999999999999999999876543 3 344543

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.80  E-value=0.0013  Score=46.80  Aligned_cols=24  Identities=46%  Similarity=0.587  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|+.|+||||+|+.+.+.+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg   25 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLS   25 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999988653

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.80  E-value=0.002  Score=55.49  Aligned_cols=34  Identities=32%  Similarity=0.611  Sum_probs=27.4

Q ss_pred             HHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           60 PLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        60 ~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +++....+.+.+|+|.|+.|+||||||+.+...+
T Consensus        56 qlL~~~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         56 QLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             HHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            3443345568899999999999999999998864

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.80  E-value=0.0027  Score=54.83  Aligned_cols=57  Identities=21%  Similarity=0.216  Sum_probs=44.5

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++++|..+   .+++|.+..++.+..++... .-.+.+-++|+.|+||||+|..+...+.
T Consensus         8 ~~kyRP~~f---~~viGq~~~~~~L~~~i~~~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~   64 (614)
T PRK14971          8 ARKYRPSTF---ESVVGQEALTTTLKNAIATN-KLAHAYLFCGPRGVGKTTCARIFAKTIN   64 (614)
T ss_pred             HHHHCCCCH---HHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            456677666   78999999999998888532 2245578999999999999999888653

>PF13245 AAA_19: Part of AAA domain

Probab=96.78  E-value=0.0062  Score=38.45  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=18.0

Q ss_pred             eEEEEEEccCCCchH-HHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKT-TIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKT-tLa~~v~~~~   93 (144)
                      -++..|.|++|+||| |++..+..-+
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            356778999999999 5555555544

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.78  E-value=0.0063  Score=47.00  Aligned_cols=54  Identities=24%  Similarity=0.347  Sum_probs=39.4

Q ss_pred             CCccchHHHHHHHHHHh-hc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           46 KDLVGVERHIKQTEPLL-CT-GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l-~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      ..++|.+.+.+.+.+-. .. ......-+-+||.-|+||++|++++.+.+....-.
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            56899998888775422 11 22335677899999999999999999977655444

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=96.78  E-value=0.0032  Score=49.90  Aligned_cols=24  Identities=46%  Similarity=0.557  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +++-+.|-||+||||+|-+.+-..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~   25 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALAL   25 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHH
Confidence            577889999999999998766644

...

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.78  E-value=0.0028  Score=50.68  Aligned_cols=48  Identities=29%  Similarity=0.362  Sum_probs=32.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQK  120 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~l~~  120 (144)
                      .+++-+.|.||+||||+|-+..-..........-++    ..+.+++.++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvS----tDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVS----TDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEE----eCCCCchHhhhc
Confidence            367888999999999999997776655554455554    444445544444

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.77  E-value=0.0027  Score=55.80  Aligned_cols=49  Identities=18%  Similarity=0.248  Sum_probs=37.4

Q ss_pred             CCccchHHHHHHHHHHhhcC-----CC--CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----SA--GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----~~--~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.+..++.+...+...     +.  ...++.++|++|+|||+||+.++..+.
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            46889998888887765421     11  234678999999999999999998763

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.77  E-value=0.0049  Score=48.61  Aligned_cols=35  Identities=17%  Similarity=0.270  Sum_probs=28.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEE
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSY  101 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~  101 (144)
                      .+..++.|.|.+|+|||||...+.+.+.......+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~V  136 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAV  136 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEE
Confidence            46899999999999999999999998766554333

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.76  E-value=0.0021  Score=49.43  Aligned_cols=37  Identities=22%  Similarity=0.417  Sum_probs=30.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHN  105 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~  105 (144)
                      .-.+.|+|..|+|||||...+.......|.+.++++.
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence            3467899999999999999999888888877766653

This is thought to be an ATPase involved in viral DNA packaging [].

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.76  E-value=0.0014  Score=49.39  Aligned_cols=26  Identities=31%  Similarity=0.502  Sum_probs=23.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+|+|-||=|+||||||+.+.+++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            36889999999999999999999765

>PRK14527 adenylate kinase; Provisional

Probab=96.76  E-value=0.0015  Score=47.82  Aligned_cols=26  Identities=23%  Similarity=0.277  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.|.|++|+||||+|+.+..+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998754

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.75  E-value=0.0015  Score=43.64  Aligned_cols=21  Identities=24%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.|+|..|+|||||.+.+.+.
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            678999999999999999873

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.75  E-value=0.0054  Score=50.16  Aligned_cols=36  Identities=31%  Similarity=0.318  Sum_probs=27.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCC--cEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFE--GSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~--~~~~v~  104 (144)
                      ...+-|+|++|+|||+|++++++.+.....  ..+++.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~  173 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS  173 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence            456789999999999999999998765432  344443

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.75  E-value=0.0055  Score=44.67  Aligned_cols=26  Identities=38%  Similarity=0.470  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+|.|.|..|+||||+++.+.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            46899999999999999999987654

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.75  E-value=0.0013  Score=46.81  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=17.6

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.|.|.+|+|||||+..+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            689999999999999999876

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=96.74  E-value=0.0024  Score=49.94  Aligned_cols=34  Identities=24%  Similarity=0.298  Sum_probs=27.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++|+|+|.+|+|||||+..+...+.... .++.+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK   35 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK   35 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence            5799999999999999999999876655 344443

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=96.74  E-value=0.0052  Score=50.06  Aligned_cols=54  Identities=26%  Similarity=0.287  Sum_probs=36.7

Q ss_pred             CCccchHHHHHH---HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           46 KDLVGVERHIKQ---TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        46 ~~~vGr~~~~~~---l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      ..+||+....+.   +.+++....-.=+.|-+.|++|+|||+||..+...+....+-
T Consensus        24 ~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   24 DGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             TTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             ccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            579999876654   456665433233677799999999999999999998765443

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.74  E-value=0.0014  Score=47.83  Aligned_cols=60  Identities=23%  Similarity=0.349  Sum_probs=38.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccC-CcEEEEccccc-----c---cchhhHHHHHHHHHHHhhCCC
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHF-EGSYFAHNVRD-----A---EETDRIKDLQKQLLYELLNDR  130 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f-~~~~~v~~~~~-----~---s~~~~~~~l~~~ll~~l~~~~  130 (144)
                      .|.++||.|+||||+.+.++..+.-+| |.=-++..-..     +   .-......+-..++..++...
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR~~E~~vl~~l~~~~   72 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLETEVLKELLEED   72 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHHHHHHHHHHHHhhcC
Confidence            467899999999999999999876665 21122211111     1   124455666677777777665

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.74  E-value=0.0058  Score=54.49  Aligned_cols=49  Identities=16%  Similarity=0.262  Sum_probs=37.2

Q ss_pred             CCccchHHHHHHHHHHhhcC-----CC--CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----SA--GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----~~--~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.+..++.+...+...     +.  ....+-++|+.|+|||+||+.+.+.+.
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            46899999998887765321     11  234667899999999999999998753

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.73  E-value=0.0043  Score=50.37  Aligned_cols=52  Identities=25%  Similarity=0.291  Sum_probs=39.7

Q ss_pred             CCCccchHHHHHH---HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           45 NKDLVGVERHIKQ---TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        45 ~~~~vGr~~~~~~---l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...+||+....+.   +.+++....-.=+-|-+.|++|+|||+||..+...+...
T Consensus        38 ~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~d   92 (450)
T COG1224          38 GDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGED   92 (450)
T ss_pred             CCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            4579998876654   466765444445678899999999999999999988653

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.0069  Score=53.48  Aligned_cols=71  Identities=14%  Similarity=0.215  Sum_probs=46.8

Q ss_pred             CCccchHHHHHHHHHHhhcC-------CCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTG-------SAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKD  117 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~  117 (144)
                      ..++|++..+..+.+.+...       +....+.-..||.|+|||-||+.++..+-..-+..+-+ ||++..+.+.+..
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~-DMSEy~EkHsVSr  568 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRI-DMSEYMEKHSVSR  568 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceee-chHHHHHHHHHHH
Confidence            46899999998887765422       12356777899999999999999998763322333333 4444444444433

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.71  E-value=0.0019  Score=49.41  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             EEccCCCchHHHHHHHHHHhhcc
Q 032234           74 IWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        74 I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      |+||+|+||||++..+.+-....
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~   23 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESN   23 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhc
Confidence            68999999999999999865443

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.71  E-value=0.0032  Score=55.68  Aligned_cols=49  Identities=16%  Similarity=0.181  Sum_probs=37.7

Q ss_pred             CCccchHHHHHHHHHHhhcC-------CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTG-------SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.+..++.+...+...       ......+-++|++|+|||+||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999998887766421       11245678999999999999999988764

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.70  E-value=0.0022  Score=51.87  Aligned_cols=46  Identities=22%  Similarity=0.148  Sum_probs=35.7

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++|.++.+..|...+  -++.+.-+-|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~--~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNV--IDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhc--cCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            67999998777765443  23455566699999999999999998843

>PLN02200 adenylate kinase family protein

Probab=96.70  E-value=0.0019  Score=49.33  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.|.|++|+||||+|..+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35688999999999999999998754

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.70  E-value=0.0037  Score=53.55  Aligned_cols=49  Identities=20%  Similarity=0.271  Sum_probs=34.6

Q ss_pred             CccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           47 DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+.|.+-.+.|.++.......-.+|.++|++|+||||+|+.++..+..
T Consensus       370 ~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        370 EWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             hhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            3445554455555554434444558889999999999999999997754

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.69  E-value=0.0019  Score=48.04  Aligned_cols=25  Identities=36%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+|.|.|++|+||||+|..+..+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3578899999999999999998864

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.68  E-value=0.0034  Score=46.63  Aligned_cols=30  Identities=23%  Similarity=0.488  Sum_probs=25.9

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+.++++|+++|..|+|||||...+.....
T Consensus        18 ~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        18 DKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             hhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345799999999999999999999887654

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK13768 GTPase; Provisional

Probab=96.68  E-value=0.0031  Score=48.60  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.|.|+||+||||++..+.....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~   27 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLE   27 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHH
Confidence            5788999999999999988877553

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.68  E-value=0.0025  Score=51.18  Aligned_cols=46  Identities=22%  Similarity=0.234  Sum_probs=35.0

Q ss_pred             CCCccchHHHHHHHHH-HhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           45 NKDLVGVERHIKQTEP-LLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~-~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -+.++|.+..+..+.- .+.   .+...+-+.|.+|+||||+|+.+..-+
T Consensus         7 f~~i~Gq~~~~~~l~~~~~~---~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          7 FSAIVGQEEMKQAMVLTAID---PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHHhCCHHHHHHHHHHHHhc---cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            3678999988877653 332   234557899999999999999998754

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.68  E-value=0.0016  Score=47.27  Aligned_cols=22  Identities=32%  Similarity=0.370  Sum_probs=19.8

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|..+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998864

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.68  E-value=0.0019  Score=49.62  Aligned_cols=23  Identities=39%  Similarity=0.481  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .++||+|..|+|||||++.+..-
T Consensus        34 e~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhcc
Confidence            47899999999999999998773

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.67  E-value=0.0014  Score=47.87  Aligned_cols=20  Identities=35%  Similarity=0.617  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~   90 (144)
                      .|.|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999999887

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.66  E-value=0.0017  Score=47.17  Aligned_cols=25  Identities=32%  Similarity=0.527  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +|.|-|++|+||||+|+.+.+...-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl   26 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGL   26 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCC
Confidence            5789999999999999999987643

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.66  E-value=0.015  Score=47.71  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=23.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+++.++|+.|+||||++..++....
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~  231 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL  231 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999998877543

>PRK15453 phosphoribulokinase; Provisional

Probab=96.66  E-value=0.0035  Score=49.35  Aligned_cols=27  Identities=26%  Similarity=0.297  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+|+|.|.+|+||||+|+.+...+.
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999887553

>PRK14532 adenylate kinase; Provisional

Probab=96.65  E-value=0.0016  Score=47.40  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=19.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.+.|++|+||||+|+.+..+.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6689999999999999998755

>PLN02348 phosphoribulokinase

Probab=96.64  E-value=0.0024  Score=52.28  Aligned_cols=30  Identities=20%  Similarity=0.364  Sum_probs=26.1

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+...+|+|.|.+|+||||+|+.+.+.+..
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            356789999999999999999999997753

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.0046  Score=53.36  Aligned_cols=52  Identities=23%  Similarity=0.265  Sum_probs=37.5

Q ss_pred             CCccchHHHHHHHHHHhhcC-----------CCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----------SAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +++=|.++.+.++...+...           -...+=|-.||+||+|||++|+++++..+.+|
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nF  496 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNF  496 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCe
Confidence            34555888888776543211           13456777899999999999999999766655

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.64  E-value=0.0074  Score=44.69  Aligned_cols=35  Identities=20%  Similarity=0.136  Sum_probs=25.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++..|.|++|+||||+...+...+...=...+++.
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~a   53 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLA   53 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEEC
Confidence            56778999999999999998886655433344443

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.64  E-value=0.0018  Score=45.90  Aligned_cols=24  Identities=38%  Similarity=0.558  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++.|.|.+|+||||+|+.+...+.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999988763

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.63  E-value=0.0058  Score=48.14  Aligned_cols=30  Identities=27%  Similarity=0.354  Sum_probs=24.7

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ......+|+|.|++|+|||||+..+.....
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~   59 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELR   59 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344578999999999999999999877543

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK09087 hypothetical protein; Validated

Probab=96.62  E-value=0.0016  Score=49.35  Aligned_cols=25  Identities=28%  Similarity=0.210  Sum_probs=21.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -+.+.|||+.|+|||+|++.++...
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc
Confidence            3568999999999999999988653

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.62  E-value=0.0053  Score=48.61  Aligned_cols=40  Identities=25%  Similarity=0.444  Sum_probs=31.3

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++...+.....+..+|||.|.||+||+||...+-..+..
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~   77 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRE   77 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHH
Confidence            4455555555667889999999999999999988776543

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.62  E-value=0.02  Score=45.40  Aligned_cols=80  Identities=18%  Similarity=0.123  Sum_probs=54.9

Q ss_pred             CCccchHHH---HHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC------cEEEEcccccccchhhH
Q 032234           46 KDLVGVERH---IKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE------GSYFAHNVRDAEETDRI  115 (144)
Q Consensus        46 ~~~vGr~~~---~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~------~~~~v~~~~~~s~~~~~  115 (144)
                      +..+|-...   ++.+..++.. .....+.+.|+|.+|.|||++++.+....-..++      +++.+.    ....++.
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq----~P~~p~~  109 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ----MPPEPDE  109 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe----cCCCCCh
Confidence            346665443   4455556643 2344678999999999999999999885433232      455555    6677888


Q ss_pred             HHHHHHHHHHhhCC
Q 032234          116 KDLQKQLLYELLND  129 (144)
Q Consensus       116 ~~l~~~ll~~l~~~  129 (144)
                      ..+...||..+.-.
T Consensus       110 ~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen  110 RRFYSAILEALGAP  123 (302)
T ss_pred             HHHHHHHHHHhCcc
Confidence            88888888888753

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.61  E-value=0.0062  Score=50.72  Aligned_cols=36  Identities=19%  Similarity=0.285  Sum_probs=28.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ...+-|||+.|+|||+|+.++++.+.......+++.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~  176 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR  176 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee
Confidence            456789999999999999999998765444455554

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.61  E-value=0.0031  Score=45.11  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++|+|+.|+|||||+..+...+...
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999976544

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.61  E-value=0.0039  Score=44.77  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++.+.|++|+||||++..+...+..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~   26 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKK   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6789999999999999988876543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.61  E-value=0.0035  Score=49.04  Aligned_cols=27  Identities=22%  Similarity=0.289  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++.++|++|+||||++..+......
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            569999999999999999998886643

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.60  E-value=0.0065  Score=45.58  Aligned_cols=37  Identities=16%  Similarity=0.122  Sum_probs=25.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .-.++.|.|.+|+|||||+..+.......-+..+|++
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            3468899999999999999876553222334555554

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.60  E-value=0.0021  Score=50.09  Aligned_cols=24  Identities=33%  Similarity=0.307  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.+.|++|+||||+|+.+..+.
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            467889999999999999998765

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.60  E-value=0.0022  Score=46.56  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=19.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |-|.|.+|+|||||...+.+.++
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~   24 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELK   24 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhh
Confidence            57899999999999999998764

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.59  E-value=0.019  Score=47.69  Aligned_cols=28  Identities=25%  Similarity=0.382  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+|.++|++|+||||.+..++..+...
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            6789999999999999888777654433

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.59  E-value=0.012  Score=48.81  Aligned_cols=25  Identities=28%  Similarity=0.201  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4678999999999999999987643

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.58  E-value=0.0096  Score=44.93  Aligned_cols=47  Identities=17%  Similarity=0.127  Sum_probs=29.5

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      |-.+|...-..-.++.|+|.+|+|||+|+..+......+=..++|+.
T Consensus        14 LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         14 LDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            33344323334568889999999999999988553222233445554

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.58  E-value=0.0022  Score=47.99  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..+||+.|+.|+||||.|+.+.+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999998866

>PRK08356 hypothetical protein; Provisional

Probab=96.57  E-value=0.0021  Score=47.37  Aligned_cols=21  Identities=38%  Similarity=0.431  Sum_probs=19.1

Q ss_pred             EEEEEEccCCCchHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      .+|+|.|++|+||||+|+.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            578999999999999999994

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=96.57  E-value=0.0047  Score=44.49  Aligned_cols=27  Identities=30%  Similarity=0.565  Sum_probs=23.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++++|+|..|+|||||+..+...+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999876544

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK14531 adenylate kinase; Provisional

Probab=96.57  E-value=0.0025  Score=46.45  Aligned_cols=23  Identities=30%  Similarity=0.213  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.+.|++|+||||+++.+....
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57889999999999999998865

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.56  E-value=0.01  Score=47.05  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-.++-|+|++|+|||+++..++-.
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~  125 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVN  125 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHH
Confidence            3567889999999999999887654

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.55  E-value=0.0043  Score=39.24  Aligned_cols=25  Identities=32%  Similarity=0.618  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++.+.|.+|+||||++..+...+..
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3678899999999999999987654

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>TIGR01287 nifH nitrogenase iron protein

Probab=96.55  E-value=0.0035  Score=48.42  Aligned_cols=24  Identities=33%  Similarity=0.649  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.|.|+|-||+||||++..++..+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            468899999999999999887754

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PHA02244 ATPase-like protein

Probab=96.55  E-value=0.0028  Score=51.63  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      -+-++|++|+|||+||++++......|
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~lg~pf  147 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEALDLDF  147 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            356799999999999999998765443

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.55  E-value=0.0019  Score=44.31  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|..|+|||||.+.++...
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEccCCCccccceeeecccc
Confidence            478999999999999999987754

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.54  E-value=0.0066  Score=48.63  Aligned_cols=45  Identities=13%  Similarity=0.048  Sum_probs=30.1

Q ss_pred             ccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           48 LVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++=..+....+..++..    -+.|.+.|++|+||||+|+.++..+...
T Consensus        47 y~f~~~~~~~vl~~l~~----~~~ilL~G~pGtGKTtla~~lA~~l~~~   91 (327)
T TIGR01650        47 YLFDKATTKAICAGFAY----DRRVMVQGYHGTGKSTHIEQIAARLNWP   91 (327)
T ss_pred             ccCCHHHHHHHHHHHhc----CCcEEEEeCCCChHHHHHHHHHHHHCCC
Confidence            33333344445555532    2358899999999999999998865443

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK06761 hypothetical protein; Provisional

Probab=96.54  E-value=0.0035  Score=49.22  Aligned_cols=27  Identities=30%  Similarity=0.448  Sum_probs=23.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++|.|.|++|+||||+++.+++.+...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            478899999999999999999987543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.54  E-value=0.0064  Score=54.41  Aligned_cols=50  Identities=18%  Similarity=0.294  Sum_probs=38.3

Q ss_pred             CCccchHHHHHHHHHHhhcC-----CC--CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----SA--GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----~~--~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++|.+..++.+...+...     +.  ....+.++|++|+|||++|+.++..+..
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~  621 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD  621 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            46899999999887766431     11  2456789999999999999999987643

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.0087  Score=52.88  Aligned_cols=83  Identities=18%  Similarity=0.324  Sum_probs=56.7

Q ss_pred             CCccchHHHHHHHHHHhhcCC-CCeEEEEEEccCCCchHHHHHHHHHHhhc-c-----CCcEEEEccccccc----chhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGS-AGVYILGIWGIGGIGKTTIADAVFNKISE-H-----FEGSYFAHNVRDAE----ETDR  114 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~~-~-----f~~~~~v~~~~~~s----~~~~  114 (144)
                      ..++||+.+++.+.+.|.... +++   .++|.+|+|||+++.-++.++-. +     -+..++.-++..+-    -.-.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNP---vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGe  246 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNP---VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGE  246 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCC---eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCc
Confidence            458999999999999886432 233   35699999999999999987633 2     23445554443331    1446


Q ss_pred             HHHHHHHHHHHhhCCCC
Q 032234          115 IKDLQKQLLYELLNDRN  131 (144)
Q Consensus       115 ~~~l~~~ll~~l~~~~~  131 (144)
                      ++.-++.+++.+....+
T Consensus       247 FEeRlk~vl~ev~~~~~  263 (786)
T COG0542         247 FEERLKAVLKEVEKSKN  263 (786)
T ss_pred             HHHHHHHHHHHHhcCCC
Confidence            67777778888776655

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.53  E-value=0.0019  Score=46.94  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +|+|.|+.|+||||++..+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.53  E-value=0.0095  Score=43.60  Aligned_cols=25  Identities=28%  Similarity=0.423  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|+.|+||||+++.+.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~   28 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLE   28 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999998754

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.53  E-value=0.0026  Score=46.41  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.|+|+.|+|||||++.++....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3688999999999999999998654

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.52  E-value=0.0022  Score=47.22  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+|.|.|++|+|||||++.+....
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcC
Confidence            4678999999999999999998754

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.52  E-value=0.0073  Score=48.83  Aligned_cols=51  Identities=22%  Similarity=0.300  Sum_probs=42.7

Q ss_pred             CCccchHHHHHHHHHHhhcC----CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCTG----SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~----~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|.++.++++++.+...    ...-+++-+.|+.|.|||||+..+.+.+..+
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            47999999999999887533    2346899999999999999999998877665

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.52  E-value=0.0023  Score=45.06  Aligned_cols=20  Identities=35%  Similarity=0.408  Sum_probs=18.4

Q ss_pred             EEccCCCchHHHHHHHHHHh
Q 032234           74 IWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        74 I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|+||+||||+|..++.+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.51  E-value=0.0041  Score=46.03  Aligned_cols=24  Identities=25%  Similarity=0.513  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.+.|+.|+||+||++.++.+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            577899999999999999999976

>PRK01184 hypothetical protein; Provisional

Probab=96.50  E-value=0.0023  Score=46.45  Aligned_cols=19  Identities=32%  Similarity=0.606  Sum_probs=16.8

Q ss_pred             EEEEEEccCCCchHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADA   88 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~   88 (144)
                      .+|+++|++|+||||+++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~~   20 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSKI   20 (184)
T ss_pred             cEEEEECCCCCCHHHHHHH
Confidence            4789999999999999873

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.50  E-value=0.0077  Score=45.75  Aligned_cols=34  Identities=18%  Similarity=0.251  Sum_probs=23.7

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |-++|...-..-.++.|.|.+|+|||+||..+..
T Consensus        10 LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~   43 (237)
T TIGR03877        10 MDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLW   43 (237)
T ss_pred             HHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            3344433333456888999999999999987544

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=96.50  E-value=0.0045  Score=44.77  Aligned_cols=29  Identities=34%  Similarity=0.480  Sum_probs=24.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++++|+|+.++|||||...+...++.+-
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~G   30 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKARG   30 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhCC
Confidence            36899999999999999999988665543

>PRK13695 putative NTPase; Provisional

Probab=96.49  E-value=0.0043  Score=44.72  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+.|.|.+|+|||||+..+++...
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999999887654

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.49  E-value=0.0034  Score=49.33  Aligned_cols=32  Identities=22%  Similarity=0.285  Sum_probs=26.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      ...+|.++||+|+||||..+.++..+...+.+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p   49 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP   49 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC
Confidence            46688889999999999999998877665543

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.49  E-value=0.0053  Score=49.40  Aligned_cols=45  Identities=18%  Similarity=0.192  Sum_probs=34.3

Q ss_pred             CCccchHHHHHHHH-HHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTE-PLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~-~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|.+..+..+. .++   ++...-+.|.|..|+|||||++.+..-+
T Consensus         4 ~~ivgq~~~~~al~~~~~---~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVI---DPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhc---CCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            56899998887764 344   2334567799999999999999998743

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.49  E-value=0.005  Score=49.03  Aligned_cols=52  Identities=29%  Similarity=0.247  Sum_probs=36.4

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEE
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSY  101 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~  101 (144)
                      ..++|.++.+..+...+...    ..+-+.|++|+|||+||+.+...+...|-...
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~   75 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPFVRIQ   75 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCeEEEe
Confidence            34888777776654433222    35668999999999999999998765554433

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.49  E-value=0.0024  Score=44.50  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~   22 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMY   22 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999998876

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK10536 hypothetical protein; Provisional

Probab=96.48  E-value=0.0099  Score=46.21  Aligned_cols=53  Identities=13%  Similarity=0.102  Sum_probs=36.9

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH-h-hccCCcEEE
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK-I-SEHFEGSYF  102 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~-~-~~~f~~~~~  102 (144)
                      ..+.++......+..++..    ..++.+.|++|+|||+||.++... + ...|...+.
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI  109 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV  109 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence            3466777767666666642    248889999999999999998874 4 333444433

>cd03114 ArgK-like The function of this protein family is unkown

Probab=96.48  E-value=0.0043  Score=44.00  Aligned_cols=23  Identities=39%  Similarity=0.804  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            37899999999999999988765

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.48  E-value=0.0052  Score=47.49  Aligned_cols=24  Identities=17%  Similarity=0.338  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.++-|.|.+|+||||||..+...
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~   59 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVT   59 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            457889999999999999876543

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.48  E-value=0.0021  Score=47.46  Aligned_cols=23  Identities=30%  Similarity=0.650  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-|.++|++|+|||||+..+...
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~   28 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD   28 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcC
Confidence            46789999999999999998874

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.47  E-value=0.0061  Score=45.76  Aligned_cols=39  Identities=18%  Similarity=0.168  Sum_probs=26.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH-h-hccCCcEEEEcccc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK-I-SEHFEGSYFAHNVR  107 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~-~-~~~f~~~~~v~~~~  107 (144)
                      ..++.+.|++|+|||.||.+..-+ + ...|+..+++...-
T Consensus        19 ~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v   59 (205)
T PF02562_consen   19 NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPV   59 (205)
T ss_dssp             -SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S-
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCC
Confidence            458889999999999999987764 3 35688888876543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.47  E-value=0.0027  Score=48.41  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=20.2

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.+..+.
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7889999999999999998865

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.47  E-value=0.014  Score=45.98  Aligned_cols=37  Identities=19%  Similarity=0.177  Sum_probs=27.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc------CCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH------FEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~~~~~v~  104 (144)
                      .-.++-|+|++|+|||||+..++-.....      -...+|+.
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~  136 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID  136 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEE
Confidence            35678899999999999999887653211      12677776

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=96.45  E-value=0.005  Score=49.92  Aligned_cols=29  Identities=31%  Similarity=0.540  Sum_probs=25.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +..+|+|+|..|+|||||+..+...+...
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~~l~~~   32 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVRRLSER   32 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHhhC
Confidence            35689999999999999999999988766

>PLN02796 D-glycerate 3-kinase

Probab=96.45  E-value=0.0034  Score=50.62  Aligned_cols=28  Identities=29%  Similarity=0.336  Sum_probs=24.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+|+|.|..|+|||||++.+...+..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~  126 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNA  126 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            4678999999999999999999987643

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.45  E-value=0.011  Score=50.07  Aligned_cols=49  Identities=18%  Similarity=0.195  Sum_probs=37.5

Q ss_pred             CCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           45 NKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...++|....++.+.+.+..-...-..|-|+|..|+|||++|+.+++..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            3578999988888877664332333455699999999999999999864

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.0021  Score=55.28  Aligned_cols=26  Identities=35%  Similarity=0.305  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..=|-+||++|+|||-||++++|..+
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag  570 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAG  570 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhcc
Confidence            44566899999999999999998543

>TIGR02012 tigrfam_recA protein RecA

Probab=96.44  E-value=0.0087  Score=47.87  Aligned_cols=36  Identities=25%  Similarity=0.231  Sum_probs=25.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .-+++-|+|++|+||||||..+.......-..++|+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yI   89 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFI   89 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence            346888999999999999988766543333344455

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK02496 adk adenylate kinase; Provisional

Probab=96.42  E-value=0.0031  Score=45.81  Aligned_cols=23  Identities=30%  Similarity=0.267  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+.|.|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999998754

>TIGR01351 adk adenylate kinases

Probab=96.42  E-value=0.0029  Score=47.10  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|..+..+.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5789999999999999998754

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.42  E-value=0.0088  Score=47.91  Aligned_cols=37  Identities=24%  Similarity=0.199  Sum_probs=26.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .-+++-|+|++|+||||||..++-.....-...+|+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            3467789999999999999987765443334555554

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR00101 ureG urease accessory protein UreG

Probab=96.41  E-value=0.0079  Score=44.71  Aligned_cols=27  Identities=26%  Similarity=0.454  Sum_probs=23.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|.|+.|+|||||.+.+.+.+...
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l~~~   28 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRALRQK   28 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhCcC
Confidence            468999999999999999999876543

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.41  E-value=0.0028  Score=47.13  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCc
Confidence            478999999999999999998743

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.41  E-value=0.0016  Score=45.26  Aligned_cols=44  Identities=20%  Similarity=0.156  Sum_probs=27.3

Q ss_pred             chHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           50 GVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        50 Gr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.-..++.+.+-+..-...-..|-|+|..|+||+++|+.++...
T Consensus         2 G~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            44444555544332211223455789999999999999999853

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.41  E-value=0.0053  Score=47.92  Aligned_cols=27  Identities=26%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++|.|+|.||+||||+|+.+...+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~   28 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK   28 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence            578899999999999999999976553

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.40  E-value=0.0053  Score=44.89  Aligned_cols=25  Identities=36%  Similarity=0.311  Sum_probs=21.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -..+.|.|+.|+||||+.+.+...+
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3578999999999999999988754

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.38  E-value=0.0032  Score=47.01  Aligned_cols=23  Identities=35%  Similarity=0.313  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37789999999999999998765

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=96.38  E-value=0.0035  Score=46.70  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|.|.|-||+||||++..+...+
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            468899999999999988877754

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.37  E-value=0.0031  Score=46.69  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||++.++...
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            588999999999999999998743

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.37  E-value=0.0081  Score=53.81  Aligned_cols=49  Identities=18%  Similarity=0.263  Sum_probs=37.5

Q ss_pred             CCccchHHHHHHHHHHhhc-----C--CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCT-----G--SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.+..++.+.+.+..     .  +....++.++|++|+|||.||+.+...+.
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4689999999888776532     1  12245788999999999999999988753

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.37  E-value=0.0064  Score=51.25  Aligned_cols=49  Identities=24%  Similarity=0.228  Sum_probs=33.7

Q ss_pred             CCccchHHHHHHHHHHhh---c-----CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLC---T-----GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~---~-----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++-|.+..++.+.....   .     .-...+-|-++|++|+|||.+|+++.+...
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~  284 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQ  284 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC
Confidence            467788776665543211   0     112346678999999999999999998654

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=96.36  E-value=0.0088  Score=46.05  Aligned_cols=42  Identities=26%  Similarity=0.313  Sum_probs=30.2

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+.+.++|...-.....+.|.|..|+||||++..+.+.+..+
T Consensus       113 ~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  113 PEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             HHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             HHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            344555554332345788999999999999999998865444

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.36  E-value=0.0036  Score=42.27  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCchHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      ..+.|.|+.|+|||||+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            578999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.35  E-value=0.006  Score=47.29  Aligned_cols=25  Identities=28%  Similarity=0.490  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.|+|+|-||+||||++..+...+.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La   26 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALA   26 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4788899999999999998877543

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.34  E-value=0.0033  Score=46.78  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998743

>TIGR00017 cmk cytidylate kinase

Probab=96.34  E-value=0.004  Score=47.01  Aligned_cols=25  Identities=44%  Similarity=0.623  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|+|.|+.|+||||+++.+..++.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987654

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.32  E-value=0.0033  Score=51.62  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -++.|+|.|..|+|||||+..+....
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46889999999999999999998754

>smart00072 GuKc Guanylate kinase homologues

Probab=96.31  E-value=0.004  Score=45.41  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.+.++|++|+||+||+..+....
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcC
Confidence            578899999999999999998864

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.31  E-value=0.015  Score=48.52  Aligned_cols=27  Identities=37%  Similarity=0.428  Sum_probs=23.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..-+-|||..|+|||+|+.++++.+..
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~  167 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIES  167 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHH
Confidence            456789999999999999999997654

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=96.31  E-value=0.0033  Score=42.08  Aligned_cols=20  Identities=30%  Similarity=0.517  Sum_probs=19.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |+|.|++|+|||||...+.+
T Consensus         2 V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999999997

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.31  E-value=0.0036  Score=45.70  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999998874

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=96.30  E-value=0.0079  Score=41.00  Aligned_cols=24  Identities=46%  Similarity=0.688  Sum_probs=20.7

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.+.|.||+||||++..+...+..
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~   25 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAE   25 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            678999999999999999886543

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>cd04155 Arl3 Arl3 subfamily

Probab=96.30  E-value=0.0031  Score=44.73  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...++|+|++|+|||||...+.+.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            456899999999999999999874

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.30  E-value=0.0083  Score=43.58  Aligned_cols=26  Identities=35%  Similarity=0.528  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++.+.|++|+||||+|+.+...+.
T Consensus        18 ~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        18 GVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.29  E-value=0.0036  Score=48.14  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -.++|+|+.|+|||||.+.+..
T Consensus        30 EfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4789999999999999999987

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.28  E-value=0.0038  Score=43.76  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+.+
T Consensus         2 ki~v~G~~~~GKTsli~~~~~   22 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQ   22 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            367899999999999998876

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK07429 phosphoribulokinase; Provisional

Probab=96.28  E-value=0.0079  Score=48.19  Aligned_cols=29  Identities=31%  Similarity=0.445  Sum_probs=25.1

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+.+|+|.|..|+||||+++.+...+..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~~   34 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADLLGE   34 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhHhcc
Confidence            45679999999999999999999987653

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.28  E-value=0.0059  Score=47.75  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|+|.|.+|+||||++..+...+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~   24 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA   24 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999887654

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.27  E-value=0.0049  Score=49.18  Aligned_cols=47  Identities=19%  Similarity=0.123  Sum_probs=35.6

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..++|....++.+.+.+..-...-.-|-|+|..|+||+++|+.++..
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            46889888888877665433333345678999999999999999874

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.27  E-value=0.0055  Score=48.22  Aligned_cols=29  Identities=24%  Similarity=0.578  Sum_probs=24.1

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.+.+++.+.|-||+||||++..+...+.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~La   31 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAMA   31 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHHH
Confidence            45679999999999999999988777443

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=96.27  E-value=0.0038  Score=49.48  Aligned_cols=28  Identities=18%  Similarity=0.366  Sum_probs=23.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .-..|.++|++|+||||+++.+...+..
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg~  159 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLGV  159 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3468999999999999999999887644

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=96.27  E-value=0.0079  Score=46.02  Aligned_cols=25  Identities=32%  Similarity=0.614  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++|.|.|-||+||||++..+...+.
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La   26 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALA   26 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHH
Confidence            4678889999999999998887553

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.26  E-value=0.012  Score=44.05  Aligned_cols=36  Identities=25%  Similarity=0.220  Sum_probs=24.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH-HhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN-KISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~-~~~~~f~~~~~v~  104 (144)
                      -.++.|.|.+|+|||+|+..+.. .....=+.++|++
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            45888999999999999987554 3333134555665

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.26  E-value=0.0041  Score=45.08  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999863

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.25  E-value=0.004  Score=46.11  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.25  E-value=0.004  Score=44.77  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+-|-|.|-||+||||++..++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3467799999999999999998743

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.25  E-value=0.0039  Score=47.04  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          27 EILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998743

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.0062  Score=50.46  Aligned_cols=43  Identities=14%  Similarity=0.271  Sum_probs=28.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKD  117 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~  117 (144)
                      =--++||||+|||++.-+++|.+    +.-++.-++.++....++.+
T Consensus       237 GYLLYGPPGTGKSS~IaAmAn~L----~ydIydLeLt~v~~n~dLr~  279 (457)
T KOG0743|consen  237 GYLLYGPPGTGKSSFIAAMANYL----NYDIYDLELTEVKLDSDLRH  279 (457)
T ss_pred             cceeeCCCCCCHHHHHHHHHhhc----CCceEEeeeccccCcHHHHH
Confidence            34579999999999999999855    33334444444554444443

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.25  E-value=0.004  Score=46.22  Aligned_cols=24  Identities=29%  Similarity=0.446  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||++.+....
T Consensus        29 ~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        29 EFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999998743

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK14528 adenylate kinase; Provisional

Probab=96.25  E-value=0.0048  Score=45.23  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999997654

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.25  E-value=0.0039  Score=47.05  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          28 EFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.004  Score=49.71  Aligned_cols=29  Identities=34%  Similarity=0.402  Sum_probs=24.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +..++|||++|.|||-+|++++..+..+|
T Consensus       166 Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  166 PKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            56789999999999999999988665444

>cd00876 Ras Ras family

Probab=96.25  E-value=0.0039  Score=43.16  Aligned_cols=20  Identities=30%  Similarity=0.609  Sum_probs=18.1

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.|+|++|+|||||...+.+
T Consensus         2 i~i~G~~~~GKTsli~~l~~   21 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVK   21 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67999999999999998875

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>cd04163 Era Era subfamily

Probab=96.24  E-value=0.0046  Score=42.66  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...|++.|.+|+|||||...+..
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~   25 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVG   25 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhC
Confidence            35789999999999999998866

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=96.24  E-value=0.007  Score=45.09  Aligned_cols=35  Identities=17%  Similarity=0.414  Sum_probs=29.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ...|++-|++|+|||||.......++..|...+-.
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~   47 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVIT   47 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEe
Confidence            57899999999999999999999988777655433

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.24  E-value=0.004  Score=47.11  Aligned_cols=23  Identities=26%  Similarity=0.390  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++..
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999864

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd01862 Rab7 Rab7 subfamily

Probab=96.23  E-value=0.0036  Score=44.12  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -|.++|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3689999999999999988763

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.23  E-value=0.0041  Score=46.33  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.23  E-value=0.0033  Score=43.18  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |+|+|.+|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999998774

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.22  E-value=0.0042  Score=46.02  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        28 ~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          28 EFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999874

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.22  E-value=0.0036  Score=48.89  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +++|.|..|+|||||++.+...+.
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll~   24 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLFG   24 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhhC
Confidence            479999999999999999987654

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.22  E-value=0.0042  Score=46.39  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.22  E-value=0.0042  Score=43.37  Aligned_cols=21  Identities=24%  Similarity=0.322  Sum_probs=18.7

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.++|.+|+|||||...+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999988763

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd00154 Rab Rab family

Probab=96.21  E-value=0.0044  Score=42.48  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.++|++|+|||||...+.+.
T Consensus         3 i~~~G~~~~GKStl~~~l~~~   23 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDG   23 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998773

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>PRK04328 hypothetical protein; Provisional

Probab=96.21  E-value=0.013  Score=45.02  Aligned_cols=37  Identities=14%  Similarity=0.087  Sum_probs=26.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .-.++-|.|.+|+|||+|+..+.......-+..+|++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3467889999999999999876554323345666665

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.21  E-value=0.0043  Score=46.47  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          27 EITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            588999999999999999998765

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK09354 recA recombinase A; Provisional

Probab=96.20  E-value=0.022  Score=46.13  Aligned_cols=48  Identities=23%  Similarity=0.192  Sum_probs=30.5

Q ss_pred             HHHHHhh-cCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           57 QTEPLLC-TGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        57 ~l~~~l~-~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .|-.+|. ..-..-+++-|+|++|+||||||..+.-.....-...+|+.
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId   95 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   95 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            3444453 22233467889999999999999987664433334445554

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.20  E-value=0.0081  Score=45.62  Aligned_cols=23  Identities=17%  Similarity=0.154  Sum_probs=18.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -.++.|.|.+|+||||||..+..
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~   46 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAY   46 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35889999999999999755444

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.20  E-value=0.013  Score=42.63  Aligned_cols=42  Identities=19%  Similarity=0.146  Sum_probs=29.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh-ccCCcEEEEcccccccc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS-EHFEGSYFAHNVRDAEE  111 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~-~~f~~~~~v~~~~~~s~  111 (144)
                      ...+-+.|+.|+|||.||+.+.+.+. ......+-+ ++.+.+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~-d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRI-DMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEE-EGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHH-hhhcccc
Confidence            35677899999999999999999876 444444433 4444444

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PRK12338 hypothetical protein; Provisional

Probab=96.19  E-value=0.0051  Score=49.10  Aligned_cols=25  Identities=36%  Similarity=0.554  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+|.|.|.+|+||||+|..+..++
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            4688999999999999999998864

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.01  Score=46.49  Aligned_cols=46  Identities=26%  Similarity=0.320  Sum_probs=31.9

Q ss_pred             CccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           47 DLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ++=|.+-+++++......           .-+..+-+-++|++|+|||.||+++++.
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence            455677666666543321           1134566778999999999999999884

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=96.18  E-value=0.046  Score=44.96  Aligned_cols=51  Identities=20%  Similarity=0.164  Sum_probs=32.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh-ccCCcEEEEcccccccchhhHHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS-EHFEGSYFAHNVRDAEETDRIKDLQKQLLYEL  126 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~-~~f~~~~~v~~~~~~s~~~~~~~l~~~ll~~l  126 (144)
                      .++.|-|.+|+|||++|..+..... .+-..++|++      -......+...++...
T Consensus       195 ~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS------lEm~~~~l~~Rl~~~~  246 (421)
T TIGR03600       195 DLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS------LEMSAEQLGERLLASK  246 (421)
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE------CCCCHHHHHHHHHHHH
Confidence            4777889999999999999886543 2223444543      2234445555554443

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.18  E-value=0.0048  Score=46.73  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.|.+.|.+|+||||+|+.+...++.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~   27 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQ   27 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHH
Confidence            46778999999999999999886544

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.18  E-value=0.0046  Score=45.89  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.17  E-value=0.0041  Score=46.13  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          26 EFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCC
Confidence            478999999999999999997743

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.17  E-value=0.0047  Score=45.47  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998743

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.0043  Score=51.96  Aligned_cols=53  Identities=23%  Similarity=0.236  Sum_probs=35.5

Q ss_pred             CCccchHHHHHHHHHHh---hcC--------CCCeEEEEEEccCCCchHHHHHHHHHHhhccCC
Q 032234           46 KDLVGVERHIKQTEPLL---CTG--------SAGVYILGIWGIGGIGKTTIADAVFNKISEHFE   98 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l---~~~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~   98 (144)
                      .++.|.+...+.+...+   ...        -.....+-++|++|+|||+||+++++....+|-
T Consensus       242 ~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi  305 (494)
T COG0464         242 DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFI  305 (494)
T ss_pred             ehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEE
Confidence            34566666665554432   111        134557889999999999999999996655553

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.16  E-value=0.011  Score=45.42  Aligned_cols=23  Identities=43%  Similarity=0.758  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|+|+|-||+||||+|-.+.-++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l   24 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL   24 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH
Confidence            58999999999999999965554

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.023  Score=45.46  Aligned_cols=83  Identities=17%  Similarity=0.191  Sum_probs=51.7

Q ss_pred             CCccchHHHHHHHHHHhh----------cCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccc-hhh
Q 032234           46 KDLVGVERHIKQTEPLLC----------TGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEE-TDR  114 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~----------~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~-~~~  114 (144)
                      +++-|.+..++.|.....          ......+-|-++|++|+||+.||++++-.....|..+.--. +  +|. --.
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSD-L--vSKWmGE  209 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSD-L--VSKWMGE  209 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHH-H--HHHHhcc
Confidence            578899988888765321          11223677888999999999999999987655543321110 0  111 112


Q ss_pred             HHHHHHHHHHHhhCCCC
Q 032234          115 IKDLQKQLLYELLNDRN  131 (144)
Q Consensus       115 ~~~l~~~ll~~l~~~~~  131 (144)
                      .+.|.++++.--...+.
T Consensus       210 SEkLVknLFemARe~kP  226 (439)
T KOG0739|consen  210 SEKLVKNLFEMARENKP  226 (439)
T ss_pred             HHHHHHHHHHHHHhcCC
Confidence            35667777766655544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.16  E-value=0.0076  Score=49.15  Aligned_cols=28  Identities=21%  Similarity=0.302  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      -.++.++|+.|+||||++..+.......
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~  164 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMR  164 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            4688999999999999999998865433

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=96.16  E-value=0.0044  Score=47.88  Aligned_cols=24  Identities=33%  Similarity=0.632  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|+|+|-||+||||++..+...+
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468888999999999998877744

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.16  E-value=0.0047  Score=41.99  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -|.++|.+|+|||||...+...
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~   24 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGN   24 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988773

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.15  E-value=0.0049  Score=45.25  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|..|.|||||++.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            48899999999999999999884

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.14  E-value=0.0047  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          29 ELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999874

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.14  E-value=0.0054  Score=45.57  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .. .+++|.|+.|+|||||++.+....
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            35 899999999999999999998743

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.13  E-value=0.0049  Score=46.54  Aligned_cols=23  Identities=22%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        28 EFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999864

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.13  E-value=0.005  Score=45.91  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        32 ~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        32 EIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999874

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.13  E-value=0.0049  Score=45.52  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            488999999999999999998843

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=96.13  E-value=0.005  Score=46.16  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++..
T Consensus        37 e~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         37 ETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            58999999999999999999874

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.13  E-value=0.0044  Score=45.92  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=20.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +++|.|+.|+|||||.+.++..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            8899999999999999999874

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.13  E-value=0.0048  Score=46.09  Aligned_cols=23  Identities=39%  Similarity=0.596  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          32 ETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999874

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.12  E-value=0.0048  Score=45.96  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999998764

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=96.12  E-value=0.0098  Score=45.93  Aligned_cols=25  Identities=32%  Similarity=0.590  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++|+|.|-||+||||+|..+...+.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~La   27 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAMA   27 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            5788889999999999998777554

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.12  E-value=0.0051  Score=45.90  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=96.12  E-value=0.0052  Score=42.61  Aligned_cols=21  Identities=29%  Similarity=0.572  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.+.|.+|+|||||...+.+
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~   23 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQ   23 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            367899999999999988876

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=96.11  E-value=0.0052  Score=46.18  Aligned_cols=23  Identities=30%  Similarity=0.251  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         34 EFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            57899999999999999999874

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.11  E-value=0.0047  Score=43.10  Aligned_cols=20  Identities=20%  Similarity=0.444  Sum_probs=18.4

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 v~v~G~~~~GKTtli~~l~~   22 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTD   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            67999999999999999876

Rab GTPases are implicated in vesicle trafficking.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=96.11  E-value=0.0059  Score=45.23  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..|+|+|+.|+||||+++.+.+.
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~   24 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQ   24 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            36899999999999999998775

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.10  E-value=0.0053  Score=45.49  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          27 EFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.10  E-value=0.0051  Score=46.73  Aligned_cols=35  Identities=26%  Similarity=0.281  Sum_probs=25.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      =.++.|+|+.|+|||||.+.+.. +...=...+|+.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~-LE~~~~G~I~i~   62 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNG-LEEPDSGSITVD   62 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CcCCCCceEEEC
Confidence            35889999999999999998743 333334566665

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=96.10  E-value=0.058  Score=48.06  Aligned_cols=75  Identities=15%  Similarity=0.142  Sum_probs=53.1

Q ss_pred             CCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccc-hhhHHHHHHHH
Q 032234           44 HNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEE-TDRIKDLQKQL  122 (144)
Q Consensus        44 ~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~-~~~~~~l~~~l  122 (144)
                      .+.+.+-|....+.+.     ...+.+++.|.-|+|-|||||+-.... ....=..+.|++    ..+ +.+...+.+.+
T Consensus        17 ~~~~~v~R~rL~~~L~-----~~~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wls----lde~dndp~rF~~yL   86 (894)
T COG2909          17 RPDNYVVRPRLLDRLR-----RANDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLS----LDESDNDPARFLSYL   86 (894)
T ss_pred             CcccccccHHHHHHHh-----cCCCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEee----cCCccCCHHHHHHHH
Confidence            3466777765444433     344689999999999999999988877 334456789998    543 45667777777


Q ss_pred             HHHhhC
Q 032234          123 LYELLN  128 (144)
Q Consensus       123 l~~l~~  128 (144)
                      +..|..
T Consensus        87 i~al~~   92 (894)
T COG2909          87 IAALQQ   92 (894)
T ss_pred             HHHHHH
Confidence            776664

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.10  E-value=0.0053  Score=46.29  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        36 e~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         36 EMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999874

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.0059  Score=51.98  Aligned_cols=46  Identities=28%  Similarity=0.269  Sum_probs=32.4

Q ss_pred             CCccchHHHHHHHHH---HhhcCC-------CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEP---LLCTGS-------AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~---~l~~~~-------~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .++-|.++.+++|++   +|....       .-++=|-++|++|+|||-||++++.
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAG  359 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAG  359 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhc
Confidence            457788877766655   443211       1145677899999999999999865

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.09  E-value=0.013  Score=43.20  Aligned_cols=32  Identities=28%  Similarity=0.268  Sum_probs=25.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGS  100 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~  100 (144)
                      ..+|=+.|++|.||||+|.+++.++...-...
T Consensus        23 ~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~   54 (197)
T COG0529          23 GAVIWFTGLSGSGKSTIANALEEKLFAKGYHV   54 (197)
T ss_pred             CeEEEeecCCCCCHHHHHHHHHHHHHHcCCeE
Confidence            45677789999999999999999876554333

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.09  E-value=0.0053  Score=46.18  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999998743

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.09  E-value=0.02  Score=43.08  Aligned_cols=35  Identities=20%  Similarity=0.168  Sum_probs=25.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      .++.|.|.+|+|||+++..+....... =...+|++
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s   49 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS   49 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence            577889999999999999876654332 34555554

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.09  E-value=0.015  Score=47.44  Aligned_cols=48  Identities=21%  Similarity=0.233  Sum_probs=31.9

Q ss_pred             HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           57 QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        57 ~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+..+|...-..-.++.|.|.+|+|||||+..++......-...+|++
T Consensus        70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344444322223458889999999999999988876554434555654

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK13973 thymidylate kinase; Provisional

Probab=96.09  E-value=0.022  Score=42.54  Aligned_cols=27  Identities=19%  Similarity=0.239  Sum_probs=23.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..|.|-|+.|+||||+++.++..+...
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~l~~~   30 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAERLRAA   30 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            478889999999999999999987543

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.08  E-value=0.005  Score=42.66  Aligned_cols=19  Identities=21%  Similarity=0.489  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~   90 (144)
                      |+++|..|+|||||...+.
T Consensus         2 i~l~G~~g~GKTtL~~~l~   20 (170)
T cd01876           2 IAFAGRSNVGKSSLINALT   20 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHh
Confidence            6899999999999999998

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.08  E-value=0.0097  Score=47.82  Aligned_cols=34  Identities=21%  Similarity=0.293  Sum_probs=26.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYF  102 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~  102 (144)
                      -..+.|.|+.|+||||+...+.+.+..+...+++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~  155 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHII  155 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEE
Confidence            3678999999999999999988876544444433

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.07  E-value=0.0042  Score=47.12  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...+-|||.+|+||||+|+.+.+
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            35688999999999999998854

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.06  E-value=0.0055  Score=46.38  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         29 ETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=96.06  E-value=0.13  Score=43.31  Aligned_cols=60  Identities=18%  Similarity=0.210  Sum_probs=45.9

Q ss_pred             CCCccchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCC--cEEEEc
Q 032234           45 NKDLVGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFE--GSYFAH  104 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~--~~~~v~  104 (144)
                      +..++||+.+++.+..|+..  +......+-|.|.+|.|||.+...++.+......  ..+++.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~in  212 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYIN  212 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEe
Confidence            36799999999999988753  3345677888999999999999999997655432  234554

>PLN02165 adenylate isopentenyltransferase

Probab=96.06  E-value=0.0059  Score=49.03  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.++.|+|+.|+||||||..++..+.
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            44899999999999999999988754

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=96.05  E-value=0.0067  Score=46.61  Aligned_cols=23  Identities=39%  Similarity=0.715  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|++.|-||+||||++..+...+
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            47788999999999988876643

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.05  E-value=0.01  Score=46.95  Aligned_cols=25  Identities=36%  Similarity=0.457  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+.|.|+.|+||||++.++.+.+.
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhh
Confidence            4667999999999999999988653

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.05  E-value=0.021  Score=48.72  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+++++|++|+||||++..+.....
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999988877543

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.05  E-value=0.019  Score=46.17  Aligned_cols=35  Identities=26%  Similarity=0.279  Sum_probs=28.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh--hccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI--SEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~--~~~f~~~~~v~  104 (144)
                      .++.|.|.+|+|||.||-.++.++  ........+++
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~   38 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLC   38 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEE
Confidence            478899999999999999999988  55566666665

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=96.04  E-value=0.0055  Score=44.71  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|.|-|+.|+||||++..+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998863

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.04  E-value=0.0057  Score=46.99  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         28 ELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998743

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.04  E-value=0.0058  Score=44.70  Aligned_cols=24  Identities=33%  Similarity=0.551  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+..-.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            488999999999999999998743

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.04  E-value=0.0057  Score=46.87  Aligned_cols=24  Identities=38%  Similarity=0.610  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+....
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            588999999999999999998754

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.04  E-value=0.013  Score=46.97  Aligned_cols=46  Identities=20%  Similarity=0.096  Sum_probs=31.5

Q ss_pred             ccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           48 LVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|....++.+.+.+..-...-.-|-|+|..|+||+++|+.+++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            3566656666655443322233456799999999999999999854

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>cd01878 HflX HflX subfamily

Probab=96.03  E-value=0.01  Score=43.55  Aligned_cols=27  Identities=22%  Similarity=0.400  Sum_probs=23.0

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+....|+|.|.+|+|||||...+.+.
T Consensus        38 ~~~~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          38 RSGIPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             hcCCCeEEEECCCCCCHHHHHHHHhcc
Confidence            345678999999999999999988874

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.03  E-value=0.0053  Score=47.64  Aligned_cols=23  Identities=35%  Similarity=0.484  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            58899999999999999999884

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.03  E-value=0.0059  Score=45.65  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        14 e~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         14 EHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999874

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=96.03  E-value=0.014  Score=48.55  Aligned_cols=27  Identities=26%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..-+|||.|..|+|||||+..+...+.
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~  237 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFR  237 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467999999999999999999976553

>cd04113 Rab4 Rab4 subfamily

Probab=96.02  E-value=0.0059  Score=42.71  Aligned_cols=20  Identities=25%  Similarity=0.405  Sum_probs=18.2

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 i~v~G~~~vGKTsli~~l~~   22 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVE   22 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67899999999999999876

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.02  E-value=0.0059  Score=45.84  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          27 EIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.02  E-value=0.006  Score=45.10  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         28 ELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999874

>PRK14526 adenylate kinase; Provisional

Probab=96.02  E-value=0.0064  Score=45.72  Aligned_cols=22  Identities=41%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|+|++|+||||++..+....
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999988654

>cd04123 Rab21 Rab21 subfamily

Probab=96.02  E-value=0.006  Score=42.29  Aligned_cols=20  Identities=25%  Similarity=0.421  Sum_probs=18.2

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 i~i~G~~~~GKStli~~l~~   22 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVE   22 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68999999999999988876

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=96.02  E-value=0.0058  Score=46.03  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.|+.|+|||||.+.++....
T Consensus        13 e~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        13 EVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999999988543

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.02  E-value=0.022  Score=44.22  Aligned_cols=38  Identities=24%  Similarity=0.237  Sum_probs=27.1

Q ss_pred             HHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           54 HIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        54 ~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+.+..++.   ..-.++.|.|+.|+||||+...+.+.+.
T Consensus        68 ~~~~l~~~~~---~~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          68 NLEIFRKLLE---KPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             HHHHHHHHHh---cCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            3444555553   2235789999999999999998877653

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.01  E-value=0.0058  Score=46.14  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        27 EIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999875

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=96.01  E-value=0.012  Score=45.33  Aligned_cols=24  Identities=33%  Similarity=0.713  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|-||+||||++..+...+.
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~la   25 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVALA   25 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHH
Confidence            578889999999999988777543

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=96.01  E-value=0.0061  Score=45.96  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        12 e~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        12 EFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999998743

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK00023 cmk cytidylate kinase; Provisional

Probab=96.00  E-value=0.0085  Score=45.39  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+|.|.|++|+||||+|+.+.....-
T Consensus         5 ~~i~i~g~~gsGksti~~~la~~~~~   30 (225)
T PRK00023          5 IVIAIDGPAGSGKGTVAKILAKKLGF   30 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            58999999999999999999887643

>PRK05973 replicative DNA helicase; Provisional

Probab=96.00  E-value=0.012  Score=45.16  Aligned_cols=24  Identities=17%  Similarity=0.038  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.++.|.|.+|+|||+++..+...
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~   87 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVE   87 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHH
Confidence            357788999999999999876554

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.00  E-value=0.0075  Score=53.06  Aligned_cols=48  Identities=23%  Similarity=0.218  Sum_probs=34.7

Q ss_pred             CCccchHHHHHHHHHHhhc-CC---------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCT-GS---------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-~~---------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.++.+++|.++... .+         .-++=+-++|++|+|||-||++++-..
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA  368 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  368 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc
Confidence            5788998877776554321 11         125666789999999999999988754

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.00  E-value=0.0056  Score=46.08  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          27 EIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCC
Confidence            57899999999999999999874

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.00  E-value=0.0063  Score=45.03  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998743

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.99  E-value=0.025  Score=43.39  Aligned_cols=35  Identities=14%  Similarity=-0.031  Sum_probs=26.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      .++.|.|.+|+||||++..+....... =..++|++
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            477789999999999999887765333 34566765

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.99  E-value=0.0061  Score=43.26  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +-|.++|..|+|||||++.+..
T Consensus         2 krimliG~~g~GKTTL~q~L~~   23 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNG   23 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcC
Confidence            3577899999999999999877

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.98  E-value=0.026  Score=49.88  Aligned_cols=62  Identities=21%  Similarity=0.207  Sum_probs=38.5

Q ss_pred             HHHHhhcc-cccCCCC-CCccchHHHHHHHHHHhhcC-------C---CCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           31 NEVLKRLE-ETFQSHN-KDLVGVERHIKQTEPLLCTG-------S---AGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        31 ~~v~~~~~-~~~~~~~-~~~vGr~~~~~~l~~~l~~~-------~---~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ++.+..+. |+.|... +++=|.++.+.++.+-+...       +   ..+.=|-+||++|+|||-||++++-.
T Consensus       655 ~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATE  728 (953)
T KOG0736|consen  655 KEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATE  728 (953)
T ss_pred             HhhhhhcCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhh
Confidence            33344443 3444444 45556887777766544210       1   12445678999999999999998763

>PF13479 AAA_24: AAA domain

Probab=95.97  E-value=0.0042  Score=46.52  Aligned_cols=20  Identities=40%  Similarity=0.559  Sum_probs=17.9

Q ss_pred             EEEEEEccCCCchHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v   89 (144)
                      ..+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            35789999999999999887

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.97  E-value=0.0067  Score=44.71  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            588999999999999999998743

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.97  E-value=0.0064  Score=46.27  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||++.+....
T Consensus        30 e~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         30 TITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            578999999999999999998754

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.97  E-value=0.007  Score=43.62  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.+....
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcc
Confidence            478999999999999999998743

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.96  E-value=0.0065  Score=44.40  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|+|+.|+|||||.+.+..
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHhh
Confidence            5789999999999999998864

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.96  E-value=0.0079  Score=46.83  Aligned_cols=26  Identities=27%  Similarity=0.392  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.++|++|..|+||||+++.+..-..
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~   64 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEE   64 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcC
Confidence            35889999999999999999988543

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=95.96  E-value=0.0067  Score=45.99  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          28 EFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999874

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.94  E-value=0.04  Score=47.04  Aligned_cols=53  Identities=15%  Similarity=0.135  Sum_probs=33.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKDLQ  119 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~l~  119 (144)
                      .....+-+.|++|+|||+||-.++....-.|-..+--.++--.|+.-...++.
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~  588 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIK  588 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHH
Confidence            34666778999999999999988776544444444434443344443333333

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.94  E-value=0.0068  Score=45.31  Aligned_cols=24  Identities=21%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|..|+|||||.+.++...
T Consensus        35 e~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        35 ECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            588999999999999999998743

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.94  E-value=0.0076  Score=42.12  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.++|.+|+|||||...+.+.
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~   22 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLING   22 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999988873

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PRK10908 cell division protein FtsE; Provisional

Probab=95.93  E-value=0.0069  Score=45.25  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         29 EMAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999874

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=95.93  E-value=0.006  Score=42.55  Aligned_cols=21  Identities=38%  Similarity=0.411  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.++|.+|+|||||...+.+.
T Consensus         2 i~iiG~~~~GKssli~~~~~~   22 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLG   22 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcC
Confidence            678999999999999998774

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=95.93  E-value=0.0069  Score=51.26  Aligned_cols=57  Identities=26%  Similarity=0.301  Sum_probs=43.4

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++.+|..+   ++++|.+.-...|...+.... -.+-....|+-|+||||+|+.++..+
T Consensus         6 L~rKyRP~~F---~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~Akal   62 (515)
T COG2812           6 LARKYRPKTF---DDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKAL   62 (515)
T ss_pred             HHHHhCcccH---HHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHh
Confidence            4556777777   788999998888888775322 23344567999999999999998865

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=95.93  E-value=0.028  Score=49.13  Aligned_cols=48  Identities=21%  Similarity=0.194  Sum_probs=36.1

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|....++.+.+.+..-...-..|-|+|..|+|||++|+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            468999888887765543222233466799999999999999999854

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.92  E-value=0.0071  Score=44.36  Aligned_cols=23  Identities=30%  Similarity=0.520  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++..
T Consensus        34 e~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          34 TLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999863

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=95.92  E-value=0.065  Score=38.95  Aligned_cols=26  Identities=23%  Similarity=0.202  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+.+-++|+.|+||||+|..+...+.
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~   39 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALL   39 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHc
Confidence            36788999999999999999988764

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.92  E-value=0.007  Score=45.95  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||++.+....
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         30 AIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998743

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=95.92  E-value=0.0071  Score=44.98  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|..|+|||||.+.+...
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=95.92  E-value=0.007  Score=45.63  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (237)
T cd03252          29 EVVGIVGRSGSGKSTLTKLIQRF   51 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            48899999999999999999874

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd01864 Rab19 Rab19 subfamily

Probab=95.92  E-value=0.0069  Score=42.66  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||+..+..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            4578899999999999988765

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.91  E-value=0.0072  Score=44.65  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999999874

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.91  E-value=0.0076  Score=52.80  Aligned_cols=25  Identities=36%  Similarity=0.473  Sum_probs=21.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-+++-++|++|.||||||..++.+
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHh
Confidence            3578889999999999999998874

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.91  E-value=0.0071  Score=46.09  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+...
T Consensus        33 e~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         33 QVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            47899999999999999999864

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.91  E-value=0.0071  Score=45.95  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+...
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         30 EVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999874

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=95.91  E-value=0.013  Score=47.60  Aligned_cols=29  Identities=28%  Similarity=0.520  Sum_probs=25.2

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|+|+|..|+|||||...+...++..
T Consensus       204 ~~~~~~~~g~~~~GKtt~~~~l~~~l~~~  232 (366)
T PRK14489        204 APPLLGVVGYSGTGKTTLLEKLIPELIAR  232 (366)
T ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHHc
Confidence            46799999999999999999999876543

>cd04136 Rap_like Rap-like subfamily

Probab=95.91  E-value=0.0073  Score=42.13  Aligned_cols=21  Identities=24%  Similarity=0.525  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||+..+..
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~   23 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQ   23 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            467899999999999987665

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.90  E-value=0.0097  Score=43.52  Aligned_cols=25  Identities=28%  Similarity=0.522  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++.|+|.+|+||||+.+.+-...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5788999999999999998877655

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.90  E-value=0.018  Score=48.67  Aligned_cols=50  Identities=20%  Similarity=0.268  Sum_probs=39.2

Q ss_pred             CCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           45 NKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...++|....++.+.+.+..-...-.-|-|+|..|+||+++|+.+++...
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            46799999888888776654333445667999999999999999999643

>cd04177 RSR1 RSR1 subgroup

Probab=95.90  E-value=0.0073  Score=42.79  Aligned_cols=21  Identities=24%  Similarity=0.556  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         3 ki~liG~~~~GKTsli~~~~~   23 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQ   23 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            368999999999999998876

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd00879 Sar1 Sar1 subfamily

Probab=95.90  E-value=0.0065  Score=43.87  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...+.+.|++|+|||||...+.+
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~   41 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKD   41 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            34559999999999999999876

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd01858 NGP_1 NGP-1

Probab=95.89  E-value=0.019  Score=40.59  Aligned_cols=43  Identities=16%  Similarity=0.219  Sum_probs=28.9

Q ss_pred             cchHHHHHHHHHHhhcC-CCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           49 VGVERHIKQTEPLLCTG-SAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        49 vGr~~~~~~l~~~l~~~-~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .|.+..++.+..++... ......++++|++|+|||||...+..
T Consensus        81 ~~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~  124 (157)
T cd01858          81 FGKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRS  124 (157)
T ss_pred             ccHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhc
Confidence            45555555555554321 12234678999999999999999977

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.89  E-value=0.0074  Score=44.86  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        25 EIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            588999999999999999998743

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

---

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	144
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-07
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	8e-07
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	7e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.7 bits (128), Expect = 2e-09
 Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 3/118 (2%)

Query: 19  ESPDSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIG 78
           E     ++  +  E   RL    Q   K  V   +   +    L        +L I G+ 
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL-IDGVL 159

Query: 79  GIGKTTIADAVFN--KISEHFEGSYFAHNVRDAEETDRIKDLQKQLLYELLNDRNVRN 134
           G GKT +A  V    K+    +   F  N+++    + + ++ ++LLY++  +   R+
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 48.1 bits (114), Expect = 2e-07
 Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 7/83 (8%)

Query: 47  DLVGVERHIKQ-TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK----ISEHFEGSY 101
                E H+ +  + L        + L + G  G GK+ IA    +K    I  +++   
Sbjct: 129 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV 188

Query: 102 FAHNVRDAEET--DRIKDLQKQL 122
           +  +   A ++  D   D+   L
Sbjct: 189 WLKDSGTAPKSTFDLFTDILLML 211

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 46.0 bits (109), Expect = 8e-07
 Identities = 16/91 (17%), Positives = 31/91 (34%), Gaps = 4/91 (4%)

Query: 47  DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN---KISEHFEGSYFA 103
             V  ++ +   +  L         + I G+ G GK+ +A         +   F G    
Sbjct: 125 VFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHW 184

Query: 104 HNVRDAEETDRIKDLQKQLLYELLNDRNVRN 134
            +V   +++  +  LQ  L   L  D +   
Sbjct: 185 VSVGKQDKSGLLMKLQN-LCTRLDQDESFSQ 214

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 37.5 bits (87), Expect = 7e-04
 Identities = 14/79 (17%), Positives = 30/79 (37%), Gaps = 7/79 (8%)

Query: 71  ILGIWGIGGIGKTTIADAV---FNKISEHFEGSYFAHNVRDA---EETDRIKDLQKQLLY 124
            + I+G+ G GK+ +A       + +   F G     ++          ++++L  +L  
Sbjct: 149 WVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQ 208

Query: 125 EL-LNDRNVRNVRFQLKNL 142
           E   + R   N+      L
Sbjct: 209 EESFSQRLPLNIEEAKDRL 227

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	144
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.52
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.32
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.2
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.18
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.71
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.7
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.69
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.66
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.65
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.64
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.56
2fna_A	357	Conserved hypothetical protein; structural genomic	98.55
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.44
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.42
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.39
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.31
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.25
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.23
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.22
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.2
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.17
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.13
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.12
3pvs_A	447	Replication-associated recombination protein A; ma	98.07
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.05
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.05
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.05
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.02
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.02
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.02
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.01
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.97
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.96
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.95
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.95
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.95
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.94
3bos_A	242	Putative DNA replication factor; P-loop containing	97.93
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.9
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.88
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.85
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.84
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.83
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.81
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.8
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.78
3co5_A	143	Putative two-component system transcriptional RES	97.75
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.75
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.74
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.74
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.72
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.72
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.72
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.71
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.71
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.71
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.7
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.67
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.65
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.64
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.64
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.61
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.6
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.6
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.57
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.54
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.53
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.51
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.51
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.51
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.51
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.5
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.49
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.47
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.47
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.46
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.43
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.41
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.41
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.41
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.4
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.38
2qgz_A	308	Helicase loader, putative primosome component; str	97.38
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.36
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.35
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.34
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.34
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.33
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.31
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.31
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.26
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.25
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	97.24
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.24
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.23
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.23
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.21
1via_A	175	Shikimate kinase; structural genomics, transferase	97.21
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.2
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.2
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.19
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.19
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.18
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.18
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.18
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.18
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.18
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.17
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.17
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.16
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.16
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.15
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.15
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.15
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.14
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.14
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.14
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.14
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.14
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.14
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.13
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.13
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.12
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.12
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.12
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.12
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.12
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.12
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.11
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.11
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.11
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.1
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.09
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.09
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.08
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.07
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.06
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.06
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.05
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.04
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.04
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.03
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.02
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.01
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.01
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.01
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.0
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.99
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.99
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.98
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.97
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.96
2og2_A	359	Putative signal recognition particle receptor; nuc	96.95
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.94
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.92
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.92
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.91
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.91
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.91
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.91
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.9
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.88
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.88
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.88
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.87
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.87
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.86
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.86
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.86
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.86
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.85
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.85
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.84
2xxa_A	433	Signal recognition particle protein; protein trans	96.84
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.84
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.83
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.83
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.82
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.81
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.79
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.78
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.78
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.78
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.78
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.78
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.77
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.76
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.76
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.76
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.74
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.74
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.74
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.73
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.73
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.72
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.71
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.71
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.7
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.67
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.66
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.65
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.65
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.65
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.64
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.64
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.63
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.63
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.61
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.6
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.6
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.6
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.59
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.59
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.59
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.57
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.57
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.55
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.55
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.54
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.54
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.53
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.53
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.52
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.52
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.51
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.5
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.48
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.48
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.47
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.46
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.44
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.44
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.43
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.42
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.42
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.41
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.4
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.38
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.33
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.33
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.32
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.31
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.31
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.3
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.3
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.28
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.28
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.27
1g6h_A	257	High-affinity branched-chain amino acid transport	96.27
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.26
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.23
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.23
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.23
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.22
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.21
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.21
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.21
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.21
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.21
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.21
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.2
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.19
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.19
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.19
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.19
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.18
3end_A	307	Light-independent protochlorophyllide reductase ir	96.17
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	96.17
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.17
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.16
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.16
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.15
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.14
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.14
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.13
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.13
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.13
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.13
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.13
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.1
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.09
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.09
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.09
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.09
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.08
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.08
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.05
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.04
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.04
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.03
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.03
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.02
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.02
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.01
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.01
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.0
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.99
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.99
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.98
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.96
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.96
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.95
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.95
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.94
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.94
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.93
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.92
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.91
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.89
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.88
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.87
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.87
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.87
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.86
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.86
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.85
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.85
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.84
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.83
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.83
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.82
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.82
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.8
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.8
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.8
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.8
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.78
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.77
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.76
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.75
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.75
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.75
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.74
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.73
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.73
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.73
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.73
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.72
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.72
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.7
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.7
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.69
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.69
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.68
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.68
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.68
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.68
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.68
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.67
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.66
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.66
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.65
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.65
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.64
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.64
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.64
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.63
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.63
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.62
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.62
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.62
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.6
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.6
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.6
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.59
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.59
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.59
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.58
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.58
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.58
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.58
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.58
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.57
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.56
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.56
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.56
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.54
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.53
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.53
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.53
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.52
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.52
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.51
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.5
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.49
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.48
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.47
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.45
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	95.45
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	95.44
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.44
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.44
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.44
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.42
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.42
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.42
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.41
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.41
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.41
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.4
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.39
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.38
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	95.38
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.35
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.34
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	95.34
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	95.34
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.34
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.33
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.33
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.33
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.32
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.32
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.32
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.31
3io5_A	333	Recombination and repair protein; storage dimer, i	95.31
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.3
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.29
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.28
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.26
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.25
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.25
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.25
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.23
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.22
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.19
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.18
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.17
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	95.17
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.17
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	95.15
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.15
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	95.15
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	95.14
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	95.1
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.1
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.09
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	95.09
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.07
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	95.07
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	95.06
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.06
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.05
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.04
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.04
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.04
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.03
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	95.03
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.03
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	95.01
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.01
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.01
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	95.01
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	95.01
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.0
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.0
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.0
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.99
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.95
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.95
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.94
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.91
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.89
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.89
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	94.88
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.88
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	94.87
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.85
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	94.84
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.83
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	94.79
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.79
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.77
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	94.75
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	94.74
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.73
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.73
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.72
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.71
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.7
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.65
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	94.63
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.63
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.62
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.61
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	94.58
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.57
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.54
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.52
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	94.5
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.49
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	94.47
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.47
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.46
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.44

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.52  E-value=2.9e-14  Score=118.65  Aligned_cols=77  Identities=21%  Similarity=0.250  Sum_probs=67.1

Q ss_pred             cchHHHHHHHHHHhhcC-CCCeEEEEEEccCCCchHHHHHHHHH----HhhccCCcEEEEcccccccch--hhHHHHHHH
Q 032234           49 VGVERHIKQTEPLLCTG-SAGVYILGIWGIGGIGKTTIADAVFN----KISEHFEGSYFAHNVRDAEET--DRIKDLQKQ  121 (144)
Q Consensus        49 vGr~~~~~~l~~~l~~~-~~~~~~i~I~G~gGiGKTtLa~~v~~----~~~~~f~~~~~v~~~~~~s~~--~~~~~l~~~  121 (144)
                      +||+.+++++.++|... ....++|+|+||||+||||||+.+|+    ++..+|+.++|++    +++.  +++..++..
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~----vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE----ECCCCCCCHHHHHHH
Confidence            59999999999988644 44689999999999999999999997    5788999999997    6655  489999999


Q ss_pred             HHHHhhCC
Q 032234          122 LLYELLND  129 (144)
Q Consensus       122 ll~~l~~~  129 (144)
                      ++..+...
T Consensus       207 il~~l~~~  214 (549)
T 2a5y_B          207 ILLMLKSE  214 (549)
T ss_dssp             HHHHHTTT
T ss_pred             HHHHHhcC
Confidence            99998865

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.32  E-value=5.5e-12  Score=111.41  Aligned_cols=85  Identities=14%  Similarity=0.199  Sum_probs=64.1

Q ss_pred             cCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH---hhccCC-cEEEEcccccccc--hhh
Q 032234           41 FQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK---ISEHFE-GSYFAHNVRDAEE--TDR  114 (144)
Q Consensus        41 ~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~---~~~~f~-~~~~v~~~~~~s~--~~~  114 (144)
                      .|.....|+||+.++++|.++|...+..+++++|+||||+||||||..+|++   ...+|. ..+|+.    ++.  ...
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~----~~~~~~~~  194 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVS----IGKQDKSG  194 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEE----CCSCCHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEE----ECCcCchH
Confidence            4445578999999999999998766677899999999999999999999986   345564 566887    544  344


Q ss_pred             HHHHHHHHHHHhhCC
Q 032234          115 IKDLQKQLLYELLND  129 (144)
Q Consensus       115 ~~~l~~~ll~~l~~~  129 (144)
                      +......++..+...
T Consensus       195 ~~~~~~~~~~~l~~~  209 (1249)
T 3sfz_A          195 LLMKLQNLCMRLDQE  209 (1249)
T ss_dssp             HHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhhhh
Confidence            455556666666543

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.20  E-value=3.4e-11  Score=100.14  Aligned_cols=64  Identities=16%  Similarity=0.208  Sum_probs=53.8

Q ss_pred             cCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh---hccCC-cEEEEc
Q 032234           41 FQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI---SEHFE-GSYFAH  104 (144)
Q Consensus        41 ~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~---~~~f~-~~~~v~  104 (144)
                      .|.....+|||+.+++.+..++.......++++|+||||+||||||..++++.   ..+|. .++|+.
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~  186 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS  186 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEE
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEE
Confidence            34456789999999999999986545568899999999999999999999853   66795 788887

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.18  E-value=4.6e-11  Score=105.88  Aligned_cols=74  Identities=16%  Similarity=0.029  Sum_probs=60.3

Q ss_pred             CccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH--HhhccCCc-EEEEcccccccchhhHHHHHHHHH
Q 032234           47 DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN--KISEHFEG-SYFAHNVRDAEETDRIKDLQKQLL  123 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~--~~~~~f~~-~~~v~~~~~~s~~~~~~~l~~~ll  123 (144)
                      ..+||+.+++.|.++|... +..++|+|+||||+||||||..+|+  ++..+|+. ++|+.    +++.++...+...++
T Consensus       129 ~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVs----Vs~~~d~~~IL~~Ll  203 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----LKNCNSPETVLEMLQ  203 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEE----CCCSSSHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEE----eCCCCCHHHHHHHHH
Confidence            3599999999999988643 3478999999999999999999997  46788986 88998    776666666666665


Q ss_pred             HH
Q 032234          124 YE  125 (144)
Q Consensus       124 ~~  125 (144)
                      ..
T Consensus       204 ~l  205 (1221)
T 1vt4_I          204 KL  205 (1221)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.71  E-value=3.3e-08  Score=78.12  Aligned_cols=78  Identities=15%  Similarity=0.153  Sum_probs=52.1

Q ss_pred             CCCccchHHHHHHHHHHh-hc--CC--CCeEEEEE--EccCCCchHHHHHHHHHHhhcc-----CC-cEEEEcccccccc
Q 032234           45 NKDLVGVERHIKQTEPLL-CT--GS--AGVYILGI--WGIGGIGKTTIADAVFNKISEH-----FE-GSYFAHNVRDAEE  111 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l-~~--~~--~~~~~i~I--~G~gGiGKTtLa~~v~~~~~~~-----f~-~~~~v~~~~~~s~  111 (144)
                      +..++||+.+++.+..++ ..  ..  .....+.|  +|++|+|||||++.+++.....     |. ..+|+.    ...
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~----~~~   96 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AFN   96 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GGG
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE----CCC
Confidence            378999999999998877 42  12  23345555  9999999999999999976543     22 345665    223


Q ss_pred             hhhHHHHHHHHHHHh
Q 032234          112 TDRIKDLQKQLLYEL  126 (144)
Q Consensus       112 ~~~~~~l~~~ll~~l  126 (144)
                      ..+...+...++..+
T Consensus        97 ~~~~~~~~~~l~~~l  111 (412)
T 1w5s_A           97 APNLYTILSLIVRQT  111 (412)
T ss_dssp             CCSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            334555555555554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.70  E-value=4.5e-08  Score=68.69  Aligned_cols=48  Identities=23%  Similarity=0.347  Sum_probs=39.9

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+..++..  .....+.|+|++|+||||||+.+++.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQR--RTKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTS--SSSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhc--CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            6799999999999888753  33456789999999999999999997643

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.69  E-value=5.9e-08  Score=76.06  Aligned_cols=77  Identities=18%  Similarity=0.201  Sum_probs=53.6

Q ss_pred             CCccchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc--------CCcEEEEcccccccchh-h
Q 032234           46 KDLVGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEH--------FEGSYFAHNVRDAEETD-R  114 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~--------f~~~~~v~~~~~~s~~~-~  114 (144)
                      .+++||+.+++.+..++..  .....+.+.|+|++|+||||||+.+++.+...        ....+|+.    .+... +
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~----~~~~~~~   95 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN----CREVGGT   95 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE----HHHHCSC
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE----CccCCCC
Confidence            6799999999998877753  23445689999999999999999999976443        23455554    22223 4


Q ss_pred             HHHHHHHHHHHh
Q 032234          115 IKDLQKQLLYEL  126 (144)
Q Consensus       115 ~~~l~~~ll~~l  126 (144)
                      ...+...++..+
T Consensus        96 ~~~~~~~l~~~l  107 (384)
T 2qby_B           96 PQAVLSSLAGKL  107 (384)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            444555555544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.66  E-value=7.2e-08  Score=75.24  Aligned_cols=50  Identities=20%  Similarity=0.325  Sum_probs=41.9

Q ss_pred             CCccchHHHHHHHHHHhhcC--CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTG--SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++||+.+++.+..++...  ......+.|+|++|+||||||+.+++....
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~   70 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEA   70 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence            78999999999998887432  345668889999999999999999997644

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.65  E-value=7e-08  Score=74.33  Aligned_cols=57  Identities=18%  Similarity=0.228  Sum_probs=45.9

Q ss_pred             cccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           39 ETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        39 ~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +.++..+..++||+.+++.+.+++...    +++.|+|++|+|||||++.+++...     .+|+.
T Consensus         5 ~~~~~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~~   61 (350)
T 2qen_A            5 LRPKTRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GILID   61 (350)
T ss_dssp             CSCCCSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEEEE
T ss_pred             CCCCCChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEEEE
Confidence            344455678999999999999888642    6889999999999999999988752     55664

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.64  E-value=4.3e-08  Score=76.39  Aligned_cols=60  Identities=22%  Similarity=0.357  Sum_probs=46.8

Q ss_pred             CCCccchHHHHHHHHHHhhcC--CCCeEEEEEEccCCCchHHHHHHHHHHhhccC---CcEEEEc
Q 032234           45 NKDLVGVERHIKQTEPLLCTG--SAGVYILGIWGIGGIGKTTIADAVFNKISEHF---EGSYFAH  104 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f---~~~~~v~  104 (144)
                      +..++||+.+++.+..++...  ......+.|+|++|+|||||++.+++.....+   ...+|+.
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~   83 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN   83 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE
Confidence            478999999999998887532  34456888999999999999999999876553   2445554

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.56  E-value=3.9e-07  Score=71.26  Aligned_cols=77  Identities=16%  Similarity=0.141  Sum_probs=52.5

Q ss_pred             CCccchHHHHHHHHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC-CcEEEEcccccccchhhHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF-EGSYFAHNVRDAEETDRIKDLQK  120 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f-~~~~~v~~~~~~s~~~~~~~l~~  120 (144)
                      .+++||+.+++.+..++..    .....+.+.|+|++|+|||||++.+++...... ...+|+.    .+...+...+..
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~----~~~~~~~~~~~~   92 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAIIG   92 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe----CccCCCHHHHHH
Confidence            6799999999998887753    222334889999999999999999999876542 3445554    222233444444


Q ss_pred             HHHHHh
Q 032234          121 QLLYEL  126 (144)
Q Consensus       121 ~ll~~l  126 (144)
                      .++..+
T Consensus        93 ~l~~~l   98 (389)
T 1fnn_A           93 EIARSL   98 (389)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            444443

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.55  E-value=2.6e-07  Score=71.22  Aligned_cols=57  Identities=19%  Similarity=0.277  Sum_probs=45.1

Q ss_pred             cccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           39 ETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        39 ~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +.++..+..++||+.+++.+.. +..     +++.|+|++|+|||||+..+.+....   ..+|+.
T Consensus         6 ~~~~~~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~---~~~~~~   62 (357)
T 2fna_A            6 TSPKDNRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNL---PYIYLD   62 (357)
T ss_dssp             SSCCCSGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTC---CEEEEE
T ss_pred             CCCCCCHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCC---CEEEEE
Confidence            3444556789999999999988 742     58999999999999999999987643   246665

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.44  E-value=3.3e-07  Score=64.20  Aligned_cols=48  Identities=23%  Similarity=0.336  Sum_probs=39.6

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+...+..  .....+.|+|++|+||||||+.+++....
T Consensus        22 ~~~~g~~~~~~~l~~~l~~--~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSR--RTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTS--SSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             chhhcchHHHHHHHHHHhC--CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            6799999999999888743  33456689999999999999999997643

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.42  E-value=3.9e-07  Score=65.23  Aligned_cols=49  Identities=22%  Similarity=0.236  Sum_probs=40.0

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|++..++.+..++...  ....+.|+|++|+|||++|+.+++.+...
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~   65 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGE   65 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSTTSSHHHHHHHHHHHHHGG
T ss_pred             HHHcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            67999999999999888643  23348899999999999999999976433

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.39  E-value=6.7e-07  Score=64.60  Aligned_cols=49  Identities=27%  Similarity=0.268  Sum_probs=40.3

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+..++.... ..+.+.|+|++|+||||||+.+++....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~   71 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNC   71 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            679999999999988886432 2347889999999999999999987643

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.31  E-value=6.5e-07  Score=70.57  Aligned_cols=71  Identities=20%  Similarity=0.279  Sum_probs=48.5

Q ss_pred             hHHHHHHHHHHHHhhcccccCCCCCCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           22 DSELVEVIANEVLKRLEETFQSHNKDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        22 ~~~~i~~iv~~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +...++.+...+..+.++   ..-.+++|.+..++.+..++..          .....+.+.++|++|+|||+||+.+++
T Consensus        63 ~~~~~~~i~~~i~~~~~~---~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A           63 EPKMIELIMNEIMDHGPP---VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CHHHHHHHHHHTBCCSCC---CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             ChHHHHHHHhhcccCCCC---CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            344555555555444332   2236799999999888776531          112356788999999999999999998


Q ss_pred             Hhhc
Q 032234           92 KISE   95 (144)
Q Consensus        92 ~~~~   95 (144)
                      ....
T Consensus       140 ~~~~  143 (357)
T 3d8b_A          140 QSGA  143 (357)
T ss_dssp             HTTC
T ss_pred             HcCC
Confidence            7643

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.25  E-value=7.4e-07  Score=69.04  Aligned_cols=62  Identities=19%  Similarity=0.242  Sum_probs=43.8

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcC---CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTG---SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~---~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+..++.+..+   .+++|++..++.+..++...   ......+-|+|++|+|||+||+.+++.....
T Consensus        18 ~~~~~~~p~~~---~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~   82 (338)
T 3pfi_A           18 TYETSLRPSNF---DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN   82 (338)
T ss_dssp             -----CCCCSG---GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             hhhhccCCCCH---HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC
Confidence            34455555544   78999999999888877532   3345567899999999999999999875443

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.23  E-value=2.4e-06  Score=65.23  Aligned_cols=58  Identities=28%  Similarity=0.302  Sum_probs=44.8

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.++.+|..+   .+++|++..++.+..++...  ..+.+.++|++|+||||+|+.+++.+..
T Consensus        15 ~~~k~~p~~~---~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~   72 (327)
T 1iqp_A           15 WVEKYRPQRL---DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFG   72 (327)
T ss_dssp             HHHHTCCCST---TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             hhhccCCCCH---HHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcC
Confidence            3445555444   67999999999999888643  3334889999999999999999997643

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.22  E-value=4e-06  Score=65.60  Aligned_cols=78  Identities=9%  Similarity=0.083  Sum_probs=52.3

Q ss_pred             ccchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC-----C--cEEEEcccccccchhhHHHH
Q 032234           48 LVGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF-----E--GSYFAHNVRDAEETDRIKDL  118 (144)
Q Consensus        48 ~vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f-----~--~~~~v~~~~~~s~~~~~~~l  118 (144)
                      +.||+++.+.+...|..  .......+-|+|++|+|||++++.+++.+....     .  ..+.+..+    ...+...+
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~----~~~t~~~~   97 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL----ELAGMDAL   97 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT----CCC--HHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc----ccCCHHHH
Confidence            88999999998877643  244567888999999999999999999875421     1  23344322    22344455


Q ss_pred             HHHHHHHhhCC
Q 032234          119 QKQLLYELLND  129 (144)
Q Consensus       119 ~~~ll~~l~~~  129 (144)
                      ...|++++.+.
T Consensus        98 ~~~I~~~L~g~  108 (318)
T 3te6_A           98 YEKIWFAISKE  108 (318)
T ss_dssp             HHHHHHHHSCC
T ss_pred             HHHHHHHhcCC
Confidence            66666666544

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.20  E-value=2.1e-06  Score=65.31  Aligned_cols=52  Identities=25%  Similarity=0.239  Sum_probs=39.7

Q ss_pred             CCCccchHHHHHHHHHHhhcC----------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           45 NKDLVGVERHIKQTEPLLCTG----------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      -.+++|.+..++.+..++...          ....+.+.++|++|+||||+|+.+++.....
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~   81 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT   81 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC
Confidence            367999999998887765320          1124578899999999999999999876433

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.17  E-value=3e-06  Score=64.61  Aligned_cols=48  Identities=27%  Similarity=0.403  Sum_probs=39.7

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+..++...  ..+.+.++|++|+||||+|+.+++.+..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~   68 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLG   68 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHG
T ss_pred             HHHHCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcC
Confidence            67999999999999888643  2333889999999999999999997643

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.13  E-value=2.5e-06  Score=65.99  Aligned_cols=57  Identities=12%  Similarity=0.177  Sum_probs=43.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +..+++|..+   .+++|++..++.+..++...  ....+.++|++|+||||+|+.+++.+.
T Consensus        27 ~~~k~~p~~~---~~i~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~la~~l~   83 (353)
T 1sxj_D           27 WVEKYRPKNL---DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELY   83 (353)
T ss_dssp             HHHHTCCSST---TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHhcCCCCH---HHhhCCHHHHHHHHHHHhcC--CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4445555444   67999999999998888533  223378999999999999999998754

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.12  E-value=2.6e-06  Score=64.31  Aligned_cols=53  Identities=21%  Similarity=0.297  Sum_probs=40.4

Q ss_pred             CCCCccchHHHHHHHHHHhhcC-----------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           44 HNKDLVGVERHIKQTEPLLCTG-----------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        44 ~~~~~vGr~~~~~~l~~~l~~~-----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .-.+++|.+..++.+...+...           ......+-++|++|+|||+||+.+++.....
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~   78 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT   78 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            3467999999999887765321           1234568899999999999999999876443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.07  E-value=4.8e-06  Score=67.83  Aligned_cols=60  Identities=20%  Similarity=0.353  Sum_probs=45.0

Q ss_pred             HHhhcccccCCCCCCccchHHHH---HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           33 VLKRLEETFQSHNKDLVGVERHI---KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~---~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +..+++|..+   .+++|.+..+   ..+...+...  ....+.+||++|+||||||+.+++.....|
T Consensus        16 la~r~rP~~l---~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f   78 (447)
T 3pvs_A           16 LAARMRPENL---AQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADV   78 (447)
T ss_dssp             HHHHTCCCST---TTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEE
T ss_pred             hHHHhCCCCH---HHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            4445555544   7899999877   5666666533  347788999999999999999999875544

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.05  E-value=3.3e-06  Score=64.20  Aligned_cols=46  Identities=24%  Similarity=0.280  Sum_probs=38.4

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|++..++.+..++..  ...+.+-++|++|+||||+|+.+++.+
T Consensus        17 ~~~~g~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVER--KNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTT--TCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhC--CCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            6799999999999888853  233348899999999999999999875

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.05  E-value=5.6e-06  Score=68.32  Aligned_cols=58  Identities=21%  Similarity=0.214  Sum_probs=44.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCC---------------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGS---------------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~---------------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++.+|..+   .+++|++..++.+..++....               ...+.+-++|++|+||||+|+.+++..
T Consensus        29 W~ekyrP~~~---~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           29 WTVKYAPTNL---QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             HHHHTCCSSG---GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cccccCCCCH---HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3445555444   779999999999998885310               134688899999999999999999976

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.05  E-value=2.8e-06  Score=58.48  Aligned_cols=47  Identities=23%  Similarity=0.194  Sum_probs=33.9

Q ss_pred             CccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           47 DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +++|+...++.+.+.+..-......+-|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            57888888888877664322222346799999999999999999853

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.02  E-value=8.2e-06  Score=63.52  Aligned_cols=56  Identities=23%  Similarity=0.252  Sum_probs=42.9

Q ss_pred             hhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           35 KRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        35 ~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++.+|..+   .+++|++..++.+...+.... ..+.+.++|++|+||||+|+.+++.+.
T Consensus         8 ~k~rp~~~---~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A            8 RKWRPQTF---ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             HHTCCCST---TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             HhhCCCch---hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34444443   679999999999988886432 234678999999999999999998764

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.02  E-value=2.7e-06  Score=65.21  Aligned_cols=50  Identities=24%  Similarity=0.367  Sum_probs=39.1

Q ss_pred             CCccchHHHHHHHHHHhhc---CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT---GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+..++..   .......+.|+|++|+|||++|+.+++....
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~   64 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV   64 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC
Confidence            7899999988888777642   1223456789999999999999999987643

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.02  E-value=6.2e-06  Score=61.25  Aligned_cols=51  Identities=22%  Similarity=0.169  Sum_probs=37.5

Q ss_pred             CCccchHHHHHHHHHHhhc--CC--------CCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT--GS--------AGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|.+..++.+.+++..  ..        ...+.+-++|++|+|||++|+.+++.....
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~   66 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP   66 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            6789998888777665421  11        234567799999999999999999976443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.01  E-value=9.4e-06  Score=62.45  Aligned_cols=58  Identities=16%  Similarity=0.128  Sum_probs=44.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.++.+|..+   .+++|.+..++.+..++... ...+++-++|++|+||||+|+.+++.+.
T Consensus        16 ~~~k~rP~~~---~~ivg~~~~~~~l~~~l~~~-~~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           16 LEQKYRPSTI---DECILPAFDKETFKSITSKG-KIPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             HHHHSCCCST---TTSCCCHHHHHHHHHHHHTT-CCCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhCCCCH---HHHhCcHHHHHHHHHHHHcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            4445555554   78999999999999888632 2345677788999999999999998764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.00  E-value=1.6e-05  Score=57.11  Aligned_cols=59  Identities=22%  Similarity=0.255  Sum_probs=38.6

Q ss_pred             CCccchH----HHHHHHHHHhhcCCCC--eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           46 KDLVGVE----RHIKQTEPLLCTGSAG--VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        46 ~~~vGr~----~~~~~l~~~l~~~~~~--~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++++..    ..++.+..++......  ...+.|+|++|+||||||+.+++.........+|+.
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            4566543    2344455555433221  267889999999999999999998765544555554

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.97  E-value=4.6e-06  Score=64.75  Aligned_cols=56  Identities=20%  Similarity=0.147  Sum_probs=41.6

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.+|..+   .+++|.+..++.+..++........ +.++|++|+||||+++.++..+
T Consensus         5 ~~kyrP~~~---~~~vg~~~~~~~l~~~~~~~~~~~~-~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E            5 VDKYRPKSL---NALSHNEELTNFLKSLSDQPRDLPH-LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             TTTTCCCSG---GGCCSCHHHHHHHHTTTTCTTCCCC-EEEECSTTSSHHHHHHTHHHHH
T ss_pred             hhccCCCCH---HHhcCCHHHHHHHHHHHhhCCCCCe-EEEECCCCCCHHHHHHHHHHHH
Confidence            345555544   6799999988888887722222233 8899999999999999998854

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.96  E-value=6.2e-06  Score=64.34  Aligned_cols=48  Identities=23%  Similarity=0.300  Sum_probs=36.9

Q ss_pred             CCccchHHHHHHHHHHhhcC---CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTG---SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~---~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++|.+..++.+...+...   ......+.++|++|+||||||+.+++.+
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            67889887777776555321   2334678999999999999999999876

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.95  E-value=1.2e-05  Score=61.85  Aligned_cols=49  Identities=27%  Similarity=0.340  Sum_probs=37.8

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.+..++.+..++..           .-.....+.++|++|+||||||+.+++...
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~   74 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ   74 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC
Confidence            5689999888887766531           113345788999999999999999998754

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.95  E-value=8.7e-06  Score=63.34  Aligned_cols=56  Identities=20%  Similarity=0.262  Sum_probs=42.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++++|..+   .+++|.+..++.+...+...  .++.+.++|++|+||||+|+.++..+
T Consensus        15 ~~~k~rp~~~---~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           15 WVEKYRPETL---DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             HHHHTCCSSG---GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hHHHhCCCcH---HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555544   66889988888888777533  33348899999999999999998865

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.95  E-value=1.1e-05  Score=62.44  Aligned_cols=51  Identities=20%  Similarity=0.245  Sum_probs=38.7

Q ss_pred             CCCccchHHHHHHHHHHhh----------cCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           45 NKDLVGVERHIKQTEPLLC----------TGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~----------~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.+++|.+..++.+..++.          ......+-+-++|++|+|||+||+++++....
T Consensus        17 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~   77 (322)
T 3eie_A           17 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS   77 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTC
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCC
Confidence            3679999999988877652          11122456889999999999999999987543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.94  E-value=8.8e-06  Score=66.44  Aligned_cols=47  Identities=23%  Similarity=0.341  Sum_probs=38.8

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|++..++.+...+...  ....+-++|++|+|||++|+.++..+.
T Consensus       180 d~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            56999999999998888542  233457999999999999999999864

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.93  E-value=3.1e-05  Score=56.18  Aligned_cols=48  Identities=19%  Similarity=0.291  Sum_probs=34.0

Q ss_pred             CCccch---HHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGV---ERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr---~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.   +..++.+..++...  ....+.|+|++|+||||||+.+++....
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~   78 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANE   78 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             hhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            567763   34555566665432  4567889999999999999999986543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.90  E-value=1.7e-05  Score=61.86  Aligned_cols=50  Identities=22%  Similarity=0.246  Sum_probs=37.6

Q ss_pred             CCccchHHHHHHHHH---HhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEP---LLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~---~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|++..++.+..   .+.......+.+-++|++|+|||++|+.+++.+..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            579999988776443   34333223357889999999999999999998754

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.88  E-value=1.2e-05  Score=63.35  Aligned_cols=50  Identities=20%  Similarity=0.272  Sum_probs=37.7

Q ss_pred             CCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.+..++.+...+..          .....+-+.++|++|+|||+||+.+++....
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~  110 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS  110 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            6799999988888776521          0112345789999999999999999986543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.85  E-value=1.4e-05  Score=60.91  Aligned_cols=48  Identities=19%  Similarity=0.210  Sum_probs=36.3

Q ss_pred             CccchHHHHHHHHHHhhcC-------------CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLCTG-------------SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~-------------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +++|.+..++.+..++..-             ......+-++|++|+|||++|+.+++.+.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   92 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLH   92 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            5889988888877654310             23345788999999999999999888654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.84  E-value=2e-05  Score=58.71  Aligned_cols=50  Identities=20%  Similarity=0.183  Sum_probs=36.0

Q ss_pred             CCccchHHHHHHHHHHhhc--C--------CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT--G--------SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.+..++.+..++..  .        ....+-+.++|++|+||||||+.+++....
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~   71 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV   71 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC
Confidence            6789998887776554321  1        012345789999999999999999987643

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.83  E-value=1.2e-05  Score=60.83  Aligned_cols=50  Identities=18%  Similarity=0.199  Sum_probs=37.1

Q ss_pred             CCccchHHHHHHHHHHhhc------------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT------------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~------------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++|++..++.+...+..            .......+-++|++|+|||++|+.+++....
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   76 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3588999888888766532            0112346779999999999999999987643

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.81  E-value=1.2e-05  Score=60.22  Aligned_cols=51  Identities=25%  Similarity=0.225  Sum_probs=36.7

Q ss_pred             CCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|.+..++.+..++..          .....+-+.++|++|+|||+||+.+++.....
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~   71 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP   71 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            6789998888777665431          11112336789999999999999999976443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.80  E-value=3e-05  Score=54.71  Aligned_cols=43  Identities=23%  Similarity=0.210  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhhcCC-CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           52 ERHIKQTEPLLCTGS-AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        52 ~~~~~~l~~~l~~~~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...++.+..++..-. ..-..+.++|++|+|||||++.+++.+.
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            334444444443211 2246789999999999999999998764

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.78  E-value=1.4e-05  Score=64.81  Aligned_cols=48  Identities=21%  Similarity=0.244  Sum_probs=37.8

Q ss_pred             CCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.+..++.+...+..          .....+.+.++|++|+|||+||+.+++..
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            6799999988888766521          01234678899999999999999999976

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.75  E-value=4.8e-06  Score=57.25  Aligned_cols=47  Identities=15%  Similarity=0.076  Sum_probs=31.5

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -+++|....++.+.+.+..-......+-|+|.+|+|||++|+.+++.
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            35788888888877665421112234668999999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.75  E-value=3.9e-05  Score=59.60  Aligned_cols=48  Identities=21%  Similarity=0.244  Sum_probs=36.8

Q ss_pred             CCccchHHHHHHHHHHhhc----------CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCT----------GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.+..++.+...+..          .....+.+-++|++|+|||+||+.+++..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            6788998888887665421          01224678899999999999999999876

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.74  E-value=3e-05  Score=61.48  Aligned_cols=50  Identities=24%  Similarity=0.273  Sum_probs=38.5

Q ss_pred             CCccchHHHHHHHHHHhhc---C-------CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT---G-------SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~-------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.+..++.+..++..   .       ....+.+-|+|++|+|||+||+.+++....
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~  174 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA  174 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC
Confidence            6799999999988776621   0       112467889999999999999999887543

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=97.74  E-value=3.1e-05  Score=60.76  Aligned_cols=48  Identities=21%  Similarity=0.214  Sum_probs=35.3

Q ss_pred             CccchHHHHHHHHHHhh-------------cCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLC-------------TGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~-------------~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|.+..++.+...+.             ........+.++|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            36888888887766552             0111345678999999999999999988653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.72  E-value=3.1e-05  Score=66.49  Aligned_cols=46  Identities=24%  Similarity=0.361  Sum_probs=38.5

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|++..++.+...+...  ....+-++|++|+|||++|+.+++.+
T Consensus       180 d~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            56999999999998888532  23346799999999999999999986

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.72  E-value=5.1e-05  Score=61.76  Aligned_cols=50  Identities=24%  Similarity=0.327  Sum_probs=37.8

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++.|.+..++.+...+..           .-...+-+-+||++|+|||+||+++++....
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~  241 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGA  241 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            5688999988887665421           1123567889999999999999999986543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.72  E-value=4.8e-05  Score=61.75  Aligned_cols=52  Identities=23%  Similarity=0.295  Sum_probs=38.9

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++.|.+..++.+...+..           .-...+-+-+||++|+|||+||+++++....+|
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~  234 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF  234 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            4688999988887664421           112356688999999999999999999765443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.71  E-value=1.5e-05  Score=69.36  Aligned_cols=47  Identities=21%  Similarity=0.347  Sum_probs=38.8

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|++..++.+...+...  ..+.+.++|++|+||||||+.+++.+.
T Consensus       170 d~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~  216 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIV  216 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence            56999999999998887532  234467899999999999999999763

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.71  E-value=4.4e-05  Score=58.04  Aligned_cols=49  Identities=18%  Similarity=0.303  Sum_probs=37.1

Q ss_pred             CccchHHHHHHHHHHhhcC------C-CCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           47 DLVGVERHIKQTEPLLCTG------S-AGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~------~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++|.+..++.+...+...      . .....+.++|++|+||||+|+.++.....
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~   73 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD   73 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHS
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcC
Confidence            5789888888776655321      1 12457899999999999999999997644

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.71  E-value=4.9e-05  Score=61.81  Aligned_cols=51  Identities=22%  Similarity=0.294  Sum_probs=38.4

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..++.|...+..           .-...+-+-+||++|+|||+||+++++.....
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~  242 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT  242 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC
Confidence            5788999988888654311           11235678899999999999999999976543

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.70  E-value=3.4e-05  Score=57.71  Aligned_cols=49  Identities=20%  Similarity=0.121  Sum_probs=33.0

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|....+..+.+.+..-......+-|+|.+|+|||++|+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4578988888777655532112224567999999999999999998654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.67  E-value=6.8e-05  Score=64.25  Aligned_cols=82  Identities=22%  Similarity=0.322  Sum_probs=52.5

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc------CCcEEEEccccccc----chhhH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH------FEGSYFAHNVRDAE----ETDRI  115 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~~~~~v~~~~~~s----~~~~~  115 (144)
                      ..++|++.+++.+...+...  ....+.++|++|+||||+|+.+++.+...      ....+|..++....    .....
T Consensus       186 d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~  263 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF  263 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchH
Confidence            46899999999998888532  34456799999999999999999976321      23444443332221    11234


Q ss_pred             HHHHHHHHHHhhCC
Q 032234          116 KDLQKQLLYELLND  129 (144)
Q Consensus       116 ~~l~~~ll~~l~~~  129 (144)
                      ....+.++..+...
T Consensus       264 e~~l~~~~~~~~~~  277 (758)
T 1r6b_X          264 EKRFKALLKQLEQD  277 (758)
T ss_dssp             HHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHhc
Confidence            44555666665543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=5.4e-05  Score=61.02  Aligned_cols=50  Identities=26%  Similarity=0.308  Sum_probs=37.3

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++.|.+..+++|...+..           .-...+-+-+||++|+|||.||+++++....
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~  208 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDC  208 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCC
Confidence            5688999988888664421           1123566789999999999999999986543

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.64  E-value=0.00013  Score=56.09  Aligned_cols=40  Identities=23%  Similarity=0.159  Sum_probs=28.4

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+..++.........+.|+|++|+||||||+.+++....
T Consensus        24 ~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~   63 (324)
T 1l8q_A           24 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKK   63 (324)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3344444332223567889999999999999999997643

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.64  E-value=7.5e-05  Score=61.18  Aligned_cols=50  Identities=26%  Similarity=0.313  Sum_probs=38.0

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++.|.+..++.|.+.+..           .-...+-|-++|++|+|||+||+++++....
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~  269 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDA  269 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTC
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCC
Confidence            4788999988888664321           1234667789999999999999999986543

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.61  E-value=8.5e-05  Score=55.81  Aligned_cols=51  Identities=10%  Similarity=0.030  Sum_probs=36.1

Q ss_pred             CCccchHHHHHHHHH-------Hhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEP-------LLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~-------~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|.....+.+..       .+.. .......+-++|++|+|||+||+.+++.....
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~   91 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   91 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            457787766555543       2321 23456788899999999999999999975443

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.60  E-value=5.2e-05  Score=58.49  Aligned_cols=55  Identities=22%  Similarity=0.307  Sum_probs=40.1

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +..++.+...   ..++|++..+..+...+...    ..+-++|++|+|||+||+.+++...
T Consensus        17 ~~~~~~~~~~---~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           17 KIKEVIDEVG---KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             HHHHHHHHHT---TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhc---cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            3344444433   57899998888876665432    3577899999999999999988643

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.60  E-value=7.9e-05  Score=60.44  Aligned_cols=49  Identities=22%  Similarity=0.239  Sum_probs=37.4

Q ss_pred             CCccchHHHHHHHHHHh---hcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLL---CTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l---~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.+..++.+..++   .......+-+-++|++|+|||+||+.+++.+.
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            67999998877655443   22222335678999999999999999999875

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.57  E-value=5.3e-05  Score=62.34  Aligned_cols=50  Identities=26%  Similarity=0.318  Sum_probs=38.7

Q ss_pred             CCccchHHHHHHHHHHhhcC-----------CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----------SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.+..++.+..++...           .....-+-|+|++|+|||++|+++++....
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~  264 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  264 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC
Confidence            56899999999887766421           233456789999999999999999887543

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.54  E-value=5.7e-05  Score=56.13  Aligned_cols=49  Identities=24%  Similarity=0.255  Sum_probs=33.4

Q ss_pred             CCccchHHHHHHHHHHhhc--C-------C-CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCT--G-------S-AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~-------~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.+..+..+..+...  .       + .-.+-+.++|++|+|||||++.++....
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5678887766665543321  0       0 1112388999999999999999988654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.53  E-value=0.0001  Score=57.95  Aligned_cols=27  Identities=22%  Similarity=0.244  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+-++|++|+|||++|+.+++....
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~~   98 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLDI   98 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            346789999999999999999987643

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.51  E-value=5.4e-05  Score=53.01  Aligned_cols=25  Identities=16%  Similarity=0.221  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.+.|++|+||||+|+.+...+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4788999999999999999998754

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.51  E-value=6.1e-05  Score=52.18  Aligned_cols=25  Identities=16%  Similarity=0.128  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||+++.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4788999999999999999988754

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.51  E-value=0.00015  Score=58.65  Aligned_cols=29  Identities=28%  Similarity=0.304  Sum_probs=25.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ...+.|+|++|+||||||+.+++.+...+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~  158 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNE  158 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhC
Confidence            66788999999999999999999876554

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.51  E-value=6e-05  Score=58.11  Aligned_cols=47  Identities=17%  Similarity=0.199  Sum_probs=35.2

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..++|....+..+...+..-......+-|+|.+|+|||++|+.+++.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHh
Confidence            35889888888887766432222345669999999999999999984

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.50  E-value=0.0001  Score=55.59  Aligned_cols=50  Identities=24%  Similarity=0.230  Sum_probs=34.9

Q ss_pred             CCCccchHHHHHHHHHHhhc--C-------C-CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           45 NKDLVGVERHIKQTEPLLCT--G-------S-AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~--~-------~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+++|.+..+..+..+...  .       + .-.+-+.|+|++|+|||||++.++....
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            36789988877776554321  0       0 0112388999999999999999988654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.49  E-value=0.00015  Score=58.98  Aligned_cols=51  Identities=27%  Similarity=0.313  Sum_probs=38.0

Q ss_pred             CCccchHHHHHHHHHHhhc---C--------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT---G--------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++-|.+..++.|...+..   .        -...+-|-+||++|+|||.||+++++.....
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~  243 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT  243 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC
Confidence            4678899988888664421   1        1235678899999999999999999865443

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.47  E-value=6.8e-05  Score=51.68  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|.|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            37899999999999999999 543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.47  E-value=8.2e-05  Score=56.97  Aligned_cols=30  Identities=40%  Similarity=0.602  Sum_probs=24.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ....+.+||++|+|||+||+.+++....+|
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~~   64 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGINP   64 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            346778999999999999999999765443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.46  E-value=0.00019  Score=51.98  Aligned_cols=28  Identities=25%  Similarity=0.487  Sum_probs=24.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..-.+++|.|+.|+|||||++.+...+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999988654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.43  E-value=8.6e-05  Score=52.34  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.|.++|++|+||||+|+.+...+.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5788999999999999999988764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.41  E-value=0.00048  Score=49.58  Aligned_cols=44  Identities=27%  Similarity=0.391  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           51 VERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        51 r~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++..++.+...+.. ......+++|.|+.|+||||+++.+...+.
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34455666555432 223457999999999999999999988654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.41  E-value=0.00018  Score=59.04  Aligned_cols=51  Identities=25%  Similarity=0.229  Sum_probs=36.5

Q ss_pred             CCccchHHHHHHHHHHhhc--C--------CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT--G--------SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~--~--------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|.+..++++..++..  .        ..-.+-+.++|++|+||||||+.+++.....
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~   76 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP   76 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            5688998887777665421  1        0113347799999999999999999875433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.41  E-value=9.6e-05  Score=53.11  Aligned_cols=27  Identities=30%  Similarity=0.338  Sum_probs=23.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...|.|+|++|+||||+++.+...+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~~   51 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLNV   51 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            458899999999999999999987643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.40  E-value=0.00024  Score=54.03  Aligned_cols=49  Identities=22%  Similarity=0.161  Sum_probs=31.7

Q ss_pred             CCccchHHHHHHHHHHhh---cC-------C-CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLC---TG-------S-AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~---~~-------~-~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.|.+..++.+...+.   ..       + .-.+-+.++|++|+|||||++.++....
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            456777777666654321   00       0 1112389999999999999999988654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.38  E-value=0.00039  Score=53.68  Aligned_cols=50  Identities=16%  Similarity=0.119  Sum_probs=33.0

Q ss_pred             HHHHHHHHhhcCCC-CeEEEEEEccCCCchHHHHHHHHHHhh-ccCCcEEEE
Q 032234           54 HIKQTEPLLCTGSA-GVYILGIWGIGGIGKTTIADAVFNKIS-EHFEGSYFA  103 (144)
Q Consensus        54 ~~~~l~~~l~~~~~-~~~~i~I~G~gGiGKTtLa~~v~~~~~-~~f~~~~~v  103 (144)
                      ....+..++..... ....+-+||++|+|||+||.++++... ..-....++
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~  187 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLL  187 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEE
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEE
Confidence            33444556653222 246778999999999999999999765 443334444

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.36  E-value=0.00025  Score=49.81  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+|.|.|++|+||||+++.+...+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            46889999999999999999997653

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.35  E-value=0.00034  Score=53.78  Aligned_cols=30  Identities=20%  Similarity=0.268  Sum_probs=25.2

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .....+|+|.|+.|+||||||+.+...+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            345779999999999999999998886543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.34  E-value=0.0001  Score=51.37  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|+|.|++|+||||+++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.34  E-value=0.00013  Score=50.67  Aligned_cols=28  Identities=21%  Similarity=0.229  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +..+|+|.|++|+||||+++.+...+.-
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg~   33 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALKL   33 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4678999999999999999999887643

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.33  E-value=0.00027  Score=56.08  Aligned_cols=49  Identities=24%  Similarity=0.281  Sum_probs=33.9

Q ss_pred             cchHHHHHHHHHHhhc--CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           49 VGVERHIKQTEPLLCT--GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        49 vGr~~~~~~l~~~l~~--~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ++.+...+.+...+..  .......|.++|++|+||||+++.++..+...|
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            3344445555444432  234567789999999999999999999766554

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.31  E-value=0.00016  Score=50.41  Aligned_cols=22  Identities=32%  Similarity=0.327  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4788999999999999999987

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.31  E-value=0.00015  Score=51.31  Aligned_cols=24  Identities=46%  Similarity=0.452  Sum_probs=21.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.+++|.|++|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            358899999999999999999775

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=97.26  E-value=0.0002  Score=55.16  Aligned_cols=47  Identities=21%  Similarity=0.192  Sum_probs=32.9

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.+..+..+...+...  ....+-++|++|+|||+||+.+++...
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             hhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            56899987655543322211  122378999999999999999999654

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.25  E-value=0.00022  Score=50.30  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|++|+||||+++.+...+.
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46789999999999999999988653

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=97.24  E-value=0.00027  Score=57.63  Aligned_cols=52  Identities=19%  Similarity=0.231  Sum_probs=37.7

Q ss_pred             CCccchHHHHHHHHHHhhcC------------CCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLCTG------------SAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~------------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .+++|.+..++.+...+...            ....+.|.++|++|+||||+|+.++......|
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~   78 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCc
Confidence            46889888887775544110            11245688999999999999999999875554

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.24  E-value=0.00019  Score=50.98  Aligned_cols=25  Identities=32%  Similarity=0.543  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .|.|.|+.|+||||+++.+...+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~   26 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGY   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCC
Confidence            5889999999999999999987643

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.23  E-value=0.00014  Score=51.08  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...|.|+|++|+||||+++.+...+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999998765

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.23  E-value=0.00021  Score=50.23  Aligned_cols=25  Identities=20%  Similarity=0.466  Sum_probs=22.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||+++.+.....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999998765

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.21  E-value=0.0012  Score=51.32  Aligned_cols=28  Identities=32%  Similarity=0.409  Sum_probs=23.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+++|+|++|+||||++..++..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999998875543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.21  E-value=0.0002  Score=50.14  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .|.|.|++|+||||+|+.+...+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988764

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.20  E-value=0.0004  Score=49.78  Aligned_cols=29  Identities=14%  Similarity=0.173  Sum_probs=24.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ..+|.|.|+.|+||||+++.+...+...+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~   37 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAAG   37 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            35799999999999999999999776543

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.20  E-value=0.00032  Score=57.90  Aligned_cols=49  Identities=24%  Similarity=0.236  Sum_probs=35.3

Q ss_pred             CCCccchHHHHHHHHHHhhc--CC--------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           45 NKDLVGVERHIKQTEPLLCT--GS--------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~--~~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.+++|.+..+..+..+...  ..        .-.+-+.++|++|+||||||++++...
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            36799999887777655421  10        112348899999999999999998854

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.19  E-value=0.00021  Score=62.17  Aligned_cols=51  Identities=25%  Similarity=0.322  Sum_probs=37.3

Q ss_pred             CCccchHHHHHHHHHHhhc---CC--------CCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT---GS--------AGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~~--------~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..+++|.+++..   ..        ...+-|-++|++|+|||+||+++++....+
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~  265 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF  265 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            3577888888877665421   11        235678899999999999999998865443

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.19  E-value=0.00028  Score=50.70  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+|.|.|+.|+||||+++.+...+.
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.18  E-value=0.00028  Score=49.32  Aligned_cols=25  Identities=28%  Similarity=0.503  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.+++|.|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.18  E-value=0.00038  Score=48.20  Aligned_cols=25  Identities=24%  Similarity=0.465  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -..+.|+|+.|+|||||++.+++..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999999865

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.18  E-value=0.0002  Score=51.32  Aligned_cols=26  Identities=19%  Similarity=0.399  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|+.|+||||+|+.+...+.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999988753

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.18  E-value=0.00018  Score=50.73  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|++|+||||+|+.+...+.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.18  E-value=0.00049  Score=48.60  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.+|.+.|++|+||||+++.+...+..
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            468899999999999999999987653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.17  E-value=0.0005  Score=49.04  Aligned_cols=27  Identities=26%  Similarity=0.353  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+|.|.|++|+||||+|+.+...+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            578999999999999999999876543

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.17  E-value=0.00029  Score=49.52  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..|.+.|++|+||||+++.+....
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.16  E-value=0.00031  Score=49.39  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.16  E-value=0.00025  Score=50.25  Aligned_cols=24  Identities=25%  Similarity=0.469  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            478999999999999999998854

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.15  E-value=0.00026  Score=50.49  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            478999999999999999998753

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.15  E-value=0.00024  Score=50.20  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.15  E-value=0.00029  Score=52.83  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4788999999999999999988653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.14  E-value=0.00067  Score=55.99  Aligned_cols=43  Identities=21%  Similarity=0.130  Sum_probs=34.2

Q ss_pred             CccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           47 DLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++|++..++.+...+...    ..+-++|++|+|||+||+.+++.+
T Consensus        23 ~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHH
Confidence            5889998888776655432    367799999999999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.14  E-value=0.0003  Score=50.49  Aligned_cols=25  Identities=36%  Similarity=0.501  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.+++|.|+.|+|||||++.+....
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998865

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.14  E-value=0.00027  Score=50.08  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||+|+.+.....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.14  E-value=0.00033  Score=50.05  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.|.|++|+||||+++.+....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.14  E-value=0.00034  Score=52.11  Aligned_cols=28  Identities=14%  Similarity=0.422  Sum_probs=24.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+|+|.|++|+||||+|+.+...+.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3467899999999999999999988654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.13  E-value=0.00062  Score=50.59  Aligned_cols=26  Identities=19%  Similarity=-0.033  Sum_probs=22.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ....|.|.|++|+||||+|+.+.+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.13  E-value=0.00081  Score=57.69  Aligned_cols=48  Identities=19%  Similarity=0.284  Sum_probs=36.3

Q ss_pred             CCccchHHHHHHHHHHhhcCC-------CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGS-------AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~-------~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|.+..++.+...+....       .....+-++|++|+|||++|+.+++..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899988888766554211       123468899999999999999999865

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.12  E-value=0.0029  Score=48.82  Aligned_cols=35  Identities=17%  Similarity=0.084  Sum_probs=26.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++.|.|.+|+||||||..++......-..++|++
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            57888999999999999988765433225666664

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.12  E-value=0.00023  Score=49.43  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||+|+.+...+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3688999999999999999988754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.12  E-value=0.00021  Score=50.03  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=18.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|++|+||||+|+.+...+.
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999987654

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.12  E-value=0.00033  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .++++.|+.|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999763

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.12  E-value=0.0013  Score=46.12  Aligned_cols=24  Identities=33%  Similarity=0.588  Sum_probs=21.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|+|.|+.|+||||+++.+...+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.12  E-value=0.00037  Score=49.51  Aligned_cols=26  Identities=35%  Similarity=0.354  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ....+|+|.|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34678999999999999999998774

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.11  E-value=0.00033  Score=49.16  Aligned_cols=26  Identities=19%  Similarity=0.243  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.11  E-value=0.00035  Score=48.28  Aligned_cols=24  Identities=17%  Similarity=0.245  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .|.|.|++|+||||+|+.+...+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999988654

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.11  E-value=0.00033  Score=50.77  Aligned_cols=24  Identities=29%  Similarity=0.428  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|+|.|+.|+||||+++.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999987643

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.10  E-value=0.00032  Score=49.99  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+||||+++.+....
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            488999999999999999998855

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.09  E-value=0.0022  Score=50.16  Aligned_cols=28  Identities=29%  Similarity=0.416  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+++++|+.|+||||++..+......
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3579999999999999999999886543

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.08  E-value=0.00034  Score=50.05  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+|+|.|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999999977

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.07  E-value=0.00033  Score=49.67  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...|.|.|++|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            457999999999999999999887

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.06  E-value=0.0004  Score=49.70  Aligned_cols=26  Identities=27%  Similarity=0.236  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...|.|.|++|+||||+|+.+.....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999988653

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.06  E-value=0.00062  Score=50.23  Aligned_cols=39  Identities=15%  Similarity=0.152  Sum_probs=29.0

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +..+..++.. -+..+.+.++|++|+||||+|.++++.+.
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4556666642 22345789999999999999999998654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.05  E-value=0.00064  Score=48.64  Aligned_cols=28  Identities=14%  Similarity=0.198  Sum_probs=24.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+|.|.|+.|+||||+++.+...+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            3589999999999999999999876543

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.04  E-value=0.00042  Score=49.82  Aligned_cols=27  Identities=33%  Similarity=0.509  Sum_probs=23.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+++|.|+.|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999988654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.04  E-value=0.0018  Score=49.92  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+++++|+.|+||||++..++....
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46999999999999999999988654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.03  E-value=0.0004  Score=50.47  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..|.+.|++|+||||+|+.+...+.
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5788999999999999999988653

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.02  E-value=0.0038  Score=48.29  Aligned_cols=42  Identities=17%  Similarity=0.241  Sum_probs=30.2

Q ss_pred             HHHHHHHHhhcC------CCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           54 HIKQTEPLLCTG------SAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        54 ~~~~l~~~l~~~------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+.+.+++...      .....++.|+|++|+||||++..++..+..
T Consensus        83 ~~~~l~~~l~~~~~~~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~  130 (306)
T 1vma_A           83 LKEIILEILNFDTKLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVD  130 (306)
T ss_dssp             HHHHHHHHTCSCCCCCCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcccCCCCeEEEEEcCCCChHHHHHHHHHHHHHh
Confidence            345555665422      123579999999999999999999886543

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.01  E-value=0.00043  Score=49.62  Aligned_cols=22  Identities=50%  Similarity=0.670  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999976

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.01  E-value=0.00032  Score=50.53  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+|.|.|++|+|||||++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4578999999999999999998865

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.01  E-value=0.0004  Score=50.31  Aligned_cols=26  Identities=31%  Similarity=0.523  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+++|.|+.|+|||||++.+.....
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            35889999999999999999988653

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.00  E-value=0.00045  Score=49.23  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|+|+.|+|||||++.+.....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999988653

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.99  E-value=0.00048  Score=50.97  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+++|.|+.|+|||||++.+....
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999654

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.99  E-value=0.00084  Score=47.79  Aligned_cols=28  Identities=18%  Similarity=0.224  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++++|.|+.|+|||||+..+...+...
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            5689999999999999999998876544

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.98  E-value=0.0022  Score=52.95  Aligned_cols=27  Identities=22%  Similarity=0.517  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.+++|+|..|+|||||+..+...+..
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            469999999999999999999886543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.97  E-value=0.00047  Score=51.52  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.+|+|.|+.|+||||+++.+..+
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            358999999999999999999854

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.96  E-value=0.00052  Score=49.32  Aligned_cols=26  Identities=35%  Similarity=0.627  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|+|.|++|+||||+++.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998753

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.95  E-value=0.0024  Score=50.58  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.+++++|+.|+||||++..++.....
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            469999999999999999999886543

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.94  E-value=0.00042  Score=48.75  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=18.0

Q ss_pred             EEEEEEccCCCchHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v   89 (144)
                      .+++++|+.|+|||||++.+
T Consensus        10 ei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58899999999999999953

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.92  E-value=0.00064  Score=50.99  Aligned_cols=26  Identities=23%  Similarity=0.515  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.+.|++|+||||+|+.+...+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45789999999999999999988743

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.92  E-value=0.0011  Score=55.54  Aligned_cols=47  Identities=15%  Similarity=0.247  Sum_probs=37.4

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|.+..++.+...+...    ..+.|+|++|+||||||+.++..+...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            46899988887777666432    478899999999999999999966443

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.91  E-value=0.00064  Score=49.00  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.91  E-value=0.00038  Score=49.93  Aligned_cols=24  Identities=25%  Similarity=0.536  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|+.|+||||+++.+...+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999988664

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.91  E-value=0.00085  Score=48.48  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=23.6

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+..+|+|.|+.|+||||+++.+....
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            356899999999999999999998763

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.91  E-value=0.00069  Score=58.00  Aligned_cols=49  Identities=16%  Similarity=0.182  Sum_probs=36.5

Q ss_pred             CCccchHHHHHHHHHHhhcC-------CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           46 KDLVGVERHIKQTEPLLCTG-------SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-------~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.+..++.+...+...       ......+-++|++|+|||++|+.+++...
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            35789888888776655321       11234788999999999999999998763

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.90  E-value=0.00055  Score=49.99  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=22.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...|.|.|++|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3578999999999999999998765

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.88  E-value=0.00047  Score=49.78  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +.|.|.|++|+|||||++.+..+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            3577999999999999999887643

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.88  E-value=0.00072  Score=48.16  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|+|.|+.|+||||+++.+...+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            799999999999999999988643

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.88  E-value=0.0022  Score=49.26  Aligned_cols=27  Identities=22%  Similarity=0.204  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+++++|++|+||||++..+.....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356999999999999999999988654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.87  E-value=0.00054  Score=49.82  Aligned_cols=26  Identities=23%  Similarity=0.160  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...|.|.|++|+||||+++.+...+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35688999999999999999988764

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.87  E-value=0.00068  Score=48.92  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997754

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.86  E-value=0.0011  Score=47.71  Aligned_cols=34  Identities=18%  Similarity=0.244  Sum_probs=25.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .++.|.|++|+|||||+..+.......-...+|+
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~   57 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYV   57 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            5788999999999999999987543322234444

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.86  E-value=0.0017  Score=50.64  Aligned_cols=28  Identities=32%  Similarity=0.434  Sum_probs=24.2

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+++|.|+.|+|||||++.+...+.
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4577999999999999999999877654

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.86  E-value=0.0012  Score=54.88  Aligned_cols=50  Identities=26%  Similarity=0.344  Sum_probs=34.7

Q ss_pred             CccchHHHHHHHHHHhh----cCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           47 DLVGVERHIKQTEPLLC----TGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~----~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++|.+.....+...+.    .....-..+.++|++|+||||||+.++......
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~  135 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK  135 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            36787776666543321    111234588999999999999999999876443

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.86  E-value=0.003  Score=49.47  Aligned_cols=37  Identities=30%  Similarity=0.337  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           57 QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        57 ~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+...+........+|+|.|.+|+|||||+..+....
T Consensus        67 ~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           67 QLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3333333334567899999999999999999987754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.85  E-value=0.00067  Score=50.27  Aligned_cols=26  Identities=19%  Similarity=0.514  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .-.+++|.|+.|+|||||++.+...+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998865

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.85  E-value=0.0014  Score=47.17  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998743

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.84  E-value=0.00053  Score=49.39  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            468999999999999999998754

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.84  E-value=0.009  Score=48.36  Aligned_cols=29  Identities=24%  Similarity=0.251  Sum_probs=24.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|.++|.+|+||||++..+...+...
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46799999999999999999988765543

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.84  E-value=0.0019  Score=46.24  Aligned_cols=32  Identities=19%  Similarity=0.077  Sum_probs=24.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++.|+|++|+|||||+..+..   ..-...+|+.
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~   52 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL---LSGKKVAYVD   52 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEE
Confidence            4889999999999999999887   2223455554

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.83  E-value=0.00075  Score=48.70  Aligned_cols=24  Identities=21%  Similarity=0.427  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            588999999999999999998754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.82  E-value=0.00057  Score=51.47  Aligned_cols=26  Identities=23%  Similarity=0.310  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|.|.|+.|+||||+++.+...+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~   74 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGY   74 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            47899999999999999999886644

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.81  E-value=0.00099  Score=46.70  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.+.|+.|+||||+++.+...+
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            578899999999999999998865

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.79  E-value=0.0013  Score=47.53  Aligned_cols=37  Identities=24%  Similarity=0.426  Sum_probs=27.0

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+.+...+.  ......|.|+|.+|+|||||+..+....
T Consensus        26 a~~~r~~~~--~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           26 ADKNRKLLN--KHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHH--HTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHH--hCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344444442  2346788999999999999999988764

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.78  E-value=0.0011  Score=47.98  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+|.|.|+.|+||||+++.+...+.
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46889999999999999999988654

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.78  E-value=0.00086  Score=52.01  Aligned_cols=28  Identities=25%  Similarity=0.411  Sum_probs=24.3

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+++|.|+.|+|||||++.+...+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            3467999999999999999999988654

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.78  E-value=0.0016  Score=49.60  Aligned_cols=35  Identities=20%  Similarity=0.164  Sum_probs=26.6

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +..|+.........+.++|++|+|||++|.++.+.
T Consensus        93 l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            44455433234567999999999999999999985

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.78  E-value=0.0067  Score=49.19  Aligned_cols=29  Identities=28%  Similarity=0.326  Sum_probs=24.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...+|.++|++|+||||++..++..+...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            36899999999999999999988765443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.78  E-value=0.0018  Score=46.53  Aligned_cols=44  Identities=23%  Similarity=0.351  Sum_probs=30.5

Q ss_pred             chHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           50 GVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        50 Gr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.+...+.+...+.  ....+.+.++|.+|+|||||+..+......
T Consensus        13 ~~~~~~~~~~~~~~--~~~~~~i~i~G~~g~GKTTl~~~l~~~~~~   56 (221)
T 2wsm_A           13 ENKRLAEKNREALR--ESGTVAVNIMGAIGSGKTLLIERTIERIGN   56 (221)
T ss_dssp             HHHHHHHHHHHHHH--HHTCEEEEEEECTTSCHHHHHHHHHHHHTT
T ss_pred             hcHHHHHHHHHhhc--ccCceEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            33444444544442  224688999999999999999998876533

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.77  E-value=0.00084  Score=47.74  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..|.|.|+.|+||||+++.+...+
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            478999999999999999998876

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.76  E-value=0.0012  Score=48.79  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=23.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...++|-|.|++|+||+|.|+.+..+.
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999998865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.76  E-value=0.0011  Score=50.55  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.+.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35688899999999999999998765

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.76  E-value=0.0035  Score=49.58  Aligned_cols=82  Identities=13%  Similarity=0.044  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHHhhcccccCCCC-----CC-ccchHHHHHHHHHHhh-cCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           23 SELVEVIANEVLKRLEETFQSHN-----KD-LVGVERHIKQTEPLLC-TGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        23 ~~~i~~iv~~v~~~~~~~~~~~~-----~~-~vGr~~~~~~l~~~l~-~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+.++..+.++.+.+....+...     .. ......-...|-.+|. ..-..-.++.|+|++|+|||||+..+......
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~   87 (356)
T 3hr8_A            8 KSVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK   87 (356)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTCCSCCCCCCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCceechhccccCCCceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34566666666666543322111     11 1112222344555553 11122368899999999999999998876543


Q ss_pred             cCCcEEEEc
Q 032234           96 HFEGSYFAH  104 (144)
Q Consensus        96 ~f~~~~~v~  104 (144)
                      .=..++|+.
T Consensus        88 ~gg~VlyId   96 (356)
T 3hr8_A           88 MGGVAAFID   96 (356)
T ss_dssp             TTCCEEEEE
T ss_pred             cCCeEEEEe
Confidence            323344553

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.74  E-value=0.0011  Score=50.49  Aligned_cols=24  Identities=46%  Similarity=0.915  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999873

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.74  E-value=0.0032  Score=45.73  Aligned_cols=35  Identities=17%  Similarity=0.127  Sum_probs=26.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc------cCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE------HFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~------~f~~~~~v~  104 (144)
                      .++.|+|++|+|||||+..+......      .-...+|+.
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~   65 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYID   65 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEE
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEE
Confidence            58899999999999999998875322      124566665

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.74  E-value=0.00089  Score=49.94  Aligned_cols=26  Identities=27%  Similarity=0.266  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.+.|++|+||||+|+.+.....
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            56889999999999999999988654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.73  E-value=0.00095  Score=48.50  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..|.+.|++|+||||+|+.+.....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4678999999999999999988653

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.73  E-value=0.00099  Score=48.91  Aligned_cols=26  Identities=23%  Similarity=0.153  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...|.+.|++|+||||+|+.+...+.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999988764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.72  E-value=0.00077  Score=49.28  Aligned_cols=24  Identities=38%  Similarity=0.641  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.+....
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.71  E-value=0.001  Score=51.64  Aligned_cols=28  Identities=32%  Similarity=0.663  Sum_probs=23.3

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ++.++|.|+|-||+||||.+..+.-.+.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA   73 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS   73 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH
Confidence            3579999999999999999987776543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.71  E-value=0.0018  Score=47.10  Aligned_cols=35  Identities=17%  Similarity=0.127  Sum_probs=24.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++.|.|++|+|||||+..++......=...+|+.
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            47889999999999999877664433223445553

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.70  E-value=0.0011  Score=47.83  Aligned_cols=23  Identities=39%  Similarity=0.547  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999976

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.67  E-value=0.0013  Score=47.59  Aligned_cols=23  Identities=26%  Similarity=0.241  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998865

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.66  E-value=0.0011  Score=48.27  Aligned_cols=26  Identities=23%  Similarity=0.455  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -+++.|+|+.|+|||||++.+.....
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            46889999999999999999987643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.65  E-value=0.0013  Score=48.04  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|++|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.65  E-value=0.0034  Score=50.35  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.|+|++|+||||+|+.+..+.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999987754

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.65  E-value=0.0042  Score=45.82  Aligned_cols=27  Identities=26%  Similarity=0.481  Sum_probs=23.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -..|.|.|+.|+||||+++.+...+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            468899999999999999999997754

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.64  E-value=0.0012  Score=49.20  Aligned_cols=26  Identities=15%  Similarity=0.419  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|++|+||||+++.+...+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999987653

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.64  E-value=0.0021  Score=48.55  Aligned_cols=27  Identities=22%  Similarity=0.355  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.+++|+|+.|+|||||.+.+...+..
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCC
Confidence            358999999999999999998875543

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=96.63  E-value=0.0023  Score=49.90  Aligned_cols=28  Identities=29%  Similarity=0.372  Sum_probs=23.9

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .....++++.|.+|+|||||+..+....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4557889999999999999999987654

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.63  E-value=0.004  Score=49.35  Aligned_cols=99  Identities=19%  Similarity=0.133  Sum_probs=45.9

Q ss_pred             cccccCceeeeccccccchHHHHHHHHHHHHhhcccccCCC-----CCCccchHHHHHHHHHHhh-cCCCCeEEEEEEcc
Q 032234            4 KKKAAPSVVHDFKVRESPDSELVEVIANEVLKRLEETFQSH-----NKDLVGVERHIKQTEPLLC-TGSAGVYILGIWGI   77 (144)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~i~~iv~~v~~~~~~~~~~~-----~~~~vGr~~~~~~l~~~l~-~~~~~~~~i~I~G~   77 (144)
                      +|+++...++--.  ..+-.+.++...+.+.+.........     .....+...-...|-.+|. ..-..-.++-|+|.
T Consensus         5 ~~~~~~~~~~~~~--~~~~~~~l~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~   82 (366)
T 1xp8_A            5 SKDATKEISAPTD--AKERSKAIETAMSQIEKAFGKGSIMKLGAESKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGP   82 (366)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHHHHCTTSSCCTTSCCCCCCCEECCSCHHHHHHTSSSSEETTSEEEEEES
T ss_pred             ccccccccCCCCC--HHHHHHHHHHHHHHHHHHhCCCcceeccccccccCceecCCCHHHHHHhCCCCccCCcEEEEEcC
Confidence            4556666555333  23344566777777766544322111     1112222222334444442 11112347788999


Q ss_pred             CCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           78 GGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        78 gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +|+||||||..+.......-..++|+.
T Consensus        83 pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           83 ESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            999999999988775543333556664

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.61  E-value=0.0026  Score=49.15  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+++|+|++|+||||++..++.....
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            569999999999999999999886543

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.60  E-value=0.0093  Score=48.19  Aligned_cols=33  Identities=27%  Similarity=0.351  Sum_probs=25.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCC-cEEEE
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFE-GSYFA  103 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~-~~~~v  103 (144)
                      .+.|.|.+|+||||++..+...+...-. ....+
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~   80 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILA   80 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEe
Confidence            7889999999999999999887654433 34444

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.60  E-value=0.0078  Score=48.51  Aligned_cols=35  Identities=17%  Similarity=-0.000  Sum_probs=26.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      .++.|.|.+|+||||||..++...... =..++|++
T Consensus       201 ~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s  236 (444)
T 2q6t_A          201 SLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS  236 (444)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE
Confidence            578899999999999999988865432 23566654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.60  E-value=0.0045  Score=46.83  Aligned_cols=35  Identities=14%  Similarity=0.091  Sum_probs=26.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCC-cEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFE-GSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~-~~~~v~  104 (144)
                      .+++|.|++|+|||||+..++........ .++|+.
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            48899999999999999999886654322 444543

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.59  E-value=0.0016  Score=45.59  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=22.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .-.++++.|+.|+|||||.+.+....
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34589999999999999999998854

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.59  E-value=0.0014  Score=48.29  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.|+.|+|||||.+.+.....
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCC
Confidence            5889999999999999999988654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.59  E-value=0.00077  Score=49.34  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=15.9

Q ss_pred             EEEEEEccCCCchHHHHHHHH-HH
Q 032234           70 YILGIWGIGGIGKTTIADAVF-NK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~-~~   92 (144)
                      .+++|.|+.|+|||||++.+. ..
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            589999999999999999998 54

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.57  E-value=0.0033  Score=50.10  Aligned_cols=27  Identities=26%  Similarity=0.111  Sum_probs=23.2

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..-.+++|+|++|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            345689999999999999999998754

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.57  E-value=0.0015  Score=50.29  Aligned_cols=28  Identities=32%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+++|.|+.|+|||||++.+.....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999988654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.55  E-value=0.0038  Score=54.37  Aligned_cols=48  Identities=19%  Similarity=0.291  Sum_probs=36.3

Q ss_pred             CccchHHHHHHHHHHhhcC-----C--CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLCTG-----S--AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~~-----~--~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|.+..++.+...+...     +  .....+.++|++|+|||++|+.+++...
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4689988888876655321     1  1235788999999999999999999763

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.55  E-value=0.0016  Score=49.29  Aligned_cols=23  Identities=35%  Similarity=0.359  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47889999999999999999874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.54  E-value=0.004  Score=48.61  Aligned_cols=29  Identities=31%  Similarity=0.477  Sum_probs=24.2

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .-..-.+++|+|++|+|||||...+....
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            33456799999999999999999998754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.54  E-value=0.0017  Score=51.13  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=22.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|+|.|+.|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999998754

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.53  E-value=0.005  Score=48.61  Aligned_cols=82  Identities=16%  Similarity=0.112  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHhhcccccCCCC-----CCccchHHHHHHHHHHhh-cCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           23 SELVEVIANEVLKRLEETFQSHN-----KDLVGVERHIKQTEPLLC-TGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        23 ~~~i~~iv~~v~~~~~~~~~~~~-----~~~vGr~~~~~~l~~~l~-~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+.++...+.+.+......+...     ....+...-...|-.+|. ..-..-.++.|+|.+|+||||||..+.......
T Consensus        11 ~~~l~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~   90 (356)
T 1u94_A           11 QKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE   90 (356)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTCCCBCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhhCCCCceEccccccccCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            34566666666665543322111     112222222334444442 111223588899999999999999888765433


Q ss_pred             CCcEEEEc
Q 032234           97 FEGSYFAH  104 (144)
Q Consensus        97 f~~~~~v~  104 (144)
                      =..++|+.
T Consensus        91 g~~vlyid   98 (356)
T 1u94_A           91 GKTCAFID   98 (356)
T ss_dssp             TCCEEEEE
T ss_pred             CCeEEEEe
Confidence            33556665

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.53  E-value=0.001  Score=51.03  Aligned_cols=27  Identities=19%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+|+|.|+.|+||||+|+.+...+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999988654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.52  E-value=0.0015  Score=47.07  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +++|+|+.|+|||||.+.++...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            57899999999999999988854

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.52  E-value=0.0063  Score=46.79  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++.++|.+|+||||++..++.....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~  124 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKK  124 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            568999999999999999998876543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.51  E-value=0.0018  Score=47.59  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|+|.|+.|+||||+++.+...+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999988743

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.50  E-value=0.0019  Score=47.19  Aligned_cols=23  Identities=35%  Similarity=0.352  Sum_probs=20.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +|.+.|++|+||+|.|..+..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46788999999999999998864

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.48  E-value=0.0064  Score=47.74  Aligned_cols=35  Identities=14%  Similarity=0.043  Sum_probs=26.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++.|.|.+|+||||||..++.....+=..++|++
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS   81 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS   81 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            47888999999999999998876544323455554

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.48  E-value=0.0033  Score=44.70  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++++|.|+.|+|||||+..+...+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            56899999999999999999988654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.47  E-value=0.0017  Score=50.78  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|+|+.|+||||||..++..+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999998754

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.47  E-value=0.0033  Score=48.51  Aligned_cols=41  Identities=7%  Similarity=-0.014  Sum_probs=30.5

Q ss_pred             chHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           50 GVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        50 Gr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.+..++.+...+....  .+.+-++|++|+||||+|..+.+.
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~   41 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEY   41 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHh
Confidence            44556667777775433  678889999999999999999875

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.44  E-value=0.0084  Score=48.46  Aligned_cols=35  Identities=14%  Similarity=0.126  Sum_probs=26.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      .++.|.|.+|+|||||+..++...... =..++|++
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            478899999999999999988866543 23566654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.44  E-value=0.0016  Score=47.64  Aligned_cols=23  Identities=35%  Similarity=0.192  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            37899999999999999998875

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=96.43  E-value=0.0094  Score=43.57  Aligned_cols=27  Identities=26%  Similarity=0.396  Sum_probs=23.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..|.+-|+.|+||||++..+.+.+...
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            578899999999999999999987654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.42  E-value=0.0019  Score=48.25  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            789999999999999999998743

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.42  E-value=0.0015  Score=48.09  Aligned_cols=23  Identities=26%  Similarity=0.248  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998763

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.41  E-value=0.0018  Score=48.10  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            47899999999999999998763

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.40  E-value=0.0012  Score=46.81  Aligned_cols=26  Identities=35%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|+|..|+|||||+..+......
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57899999999999999999886543

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.38  E-value=0.0067  Score=46.86  Aligned_cols=35  Identities=14%  Similarity=0.187  Sum_probs=26.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc------CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH------FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~------f~~~~~v~  104 (144)
                      .++.|+|.+|+||||||..+.......      -..++|+.
T Consensus       108 ~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~  148 (324)
T 2z43_A          108 TMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYID  148 (324)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             cEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            588899999999999999888764322      23566765

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.33  E-value=0.014  Score=45.48  Aligned_cols=36  Identities=17%  Similarity=0.093  Sum_probs=27.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc------cCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE------HFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~------~f~~~~~v~  104 (144)
                      -.++.|+|.+|+||||||..++.....      .-..++|+.
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~  163 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID  163 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            468889999999999999988876322      123566775

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.33  E-value=0.0023  Score=47.94  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.32  E-value=0.0037  Score=49.14  Aligned_cols=82  Identities=15%  Similarity=0.094  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHhhcccccCCCC-----CCccchHHHHHHHHHHhh-cCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           23 SELVEVIANEVLKRLEETFQSHN-----KDLVGVERHIKQTEPLLC-TGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        23 ~~~i~~iv~~v~~~~~~~~~~~~-----~~~vGr~~~~~~l~~~l~-~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+.++...+.+.+......+...     ....+.......|-.+|. ..-..-.++.|+|.+|+||||||..+.......
T Consensus         9 ~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~   88 (349)
T 2zr9_A            9 EKALELAMAQIDKNFGKGSVMRLGEEVRQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA   88 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTCCCCCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhhCCCCceeccccccccCCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            34566666666665543322111     111122222334444443 111223588999999999999999887654333


Q ss_pred             CCcEEEEc
Q 032234           97 FEGSYFAH  104 (144)
Q Consensus        97 f~~~~~v~  104 (144)
                      =..++|+.
T Consensus        89 g~~vlyi~   96 (349)
T 2zr9_A           89 GGIAAFID   96 (349)
T ss_dssp             TCCEEEEE
T ss_pred             CCeEEEEE
Confidence            23445554

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.31  E-value=0.0019  Score=48.03  Aligned_cols=24  Identities=21%  Similarity=0.484  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998743

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.31  E-value=0.0031  Score=44.55  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...++|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            567899999999999999998874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.30  E-value=0.0019  Score=48.74  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998774

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.30  E-value=0.0017  Score=51.06  Aligned_cols=26  Identities=19%  Similarity=0.311  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|+.|+|||||+..++.++.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            35899999999999999999998654

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=96.28  E-value=0.0025  Score=45.15  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...++|+|..|+|||||...+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999998874

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=96.28  E-value=0.006  Score=44.94  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++.+.|.||+||||++..+...+.
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            56778899999999999999987554

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.27  E-value=0.0025  Score=48.23  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999884

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.27  E-value=0.002  Score=48.39  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999774

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.26  E-value=0.0021  Score=47.84  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999774

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.23  E-value=0.0029  Score=49.05  Aligned_cols=26  Identities=15%  Similarity=0.276  Sum_probs=22.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .=.+++|+|+.|+|||||++.+..-.
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34688999999999999999998754

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.23  E-value=0.0025  Score=48.55  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            47899999999999999998763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.23  E-value=0.0037  Score=42.11  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +-|.++|.+|+|||||...+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999998763

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.22  E-value=0.0054  Score=44.56  Aligned_cols=35  Identities=29%  Similarity=0.204  Sum_probs=24.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH-HhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFN-KISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~-~~~~~f~~~~~v~  104 (144)
                      .++-|.|.+|+|||+||..++. .....-...+|++
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            4778999999999999987654 3433344555554

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.21  E-value=0.0024  Score=47.92  Aligned_cols=32  Identities=31%  Similarity=0.332  Sum_probs=24.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .+++|+|+.|+|||||.+.+..-....  ..+++
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~~p~--G~i~~   58 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMTSGK--GSIQF   58 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCE--EEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCCC--eEEEE
Confidence            478999999999999999998755433  44444

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.21  E-value=0.0028  Score=47.72  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.|+|++|+|||||+..+...+.
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            5889999999999999999887543

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.21  E-value=0.0026  Score=48.15  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            47899999999999999998763

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.21  E-value=0.0025  Score=45.91  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            368999999999999999987754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.21  E-value=0.0025  Score=47.42  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58899999999999999998773

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.21  E-value=0.0023  Score=47.24  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998743

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.20  E-value=0.011  Score=48.00  Aligned_cols=35  Identities=17%  Similarity=0.084  Sum_probs=26.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .++.|.|.+|+||||||..++......=..++|++
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            47888999999999999988876543323455554

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.19  E-value=0.0036  Score=49.12  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +++-|+|++|+||||||..+...
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh
Confidence            45679999999999999998875

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.19  E-value=0.0023  Score=48.39  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcC
Confidence            57899999999999999998774

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.19  E-value=0.0024  Score=47.79  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998774

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.19  E-value=0.0093  Score=44.17  Aligned_cols=27  Identities=30%  Similarity=0.420  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..|.+-|+.|+||||+++.+.+.+...
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            578899999999999999999987654

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.18  E-value=0.0061  Score=46.71  Aligned_cols=27  Identities=26%  Similarity=0.197  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..+++++|.+|+||||++..++.....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999886543

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=96.17  E-value=0.0069  Score=44.93  Aligned_cols=26  Identities=31%  Similarity=0.575  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++|+|.|-||+||||+|..+...+..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~   27 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHA   27 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHH
Confidence            57888899999999999998886654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.17  E-value=0.0033  Score=47.65  Aligned_cols=22  Identities=27%  Similarity=0.617  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .++|+|+.|+|||||.+.++..
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.16  E-value=0.004  Score=45.79  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..|.|.|+.|+||||+++.+...+.
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999998763

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.16  E-value=0.0025  Score=48.02  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999774

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.15  E-value=0.0037  Score=54.38  Aligned_cols=48  Identities=25%  Similarity=0.289  Sum_probs=35.0

Q ss_pred             CCccchHHHHHHHHHHhhcC-----------CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTG-----------SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~-----------~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.++.++.|...+...           ....+-+-++|++|+|||.||+++++..
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh
Confidence            45678888888887654311           1124456799999999999999998854

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.14  E-value=0.0026  Score=47.95  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999998744

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.14  E-value=0.0026  Score=48.27  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999774

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=96.13  E-value=0.0067  Score=50.17  Aligned_cols=29  Identities=17%  Similarity=0.118  Sum_probs=24.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ..+|.++|++|+||||+|+.+...+...|
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            46888999999999999999988765444

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.13  E-value=0.0021  Score=47.20  Aligned_cols=24  Identities=29%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            368899999999999999998743

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.13  E-value=0.0026  Score=48.02  Aligned_cols=23  Identities=30%  Similarity=0.258  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47899999999999999998774

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.13  E-value=0.0036  Score=48.95  Aligned_cols=25  Identities=20%  Similarity=0.360  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|+.|+||||||..++..+.
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCc
Confidence            5789999999999999999988643

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=96.13  E-value=0.0036  Score=42.06  Aligned_cols=22  Identities=27%  Similarity=0.558  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -|.++|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998763

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.10  E-value=0.0028  Score=48.37  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            478999999999999999998743

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.09  E-value=0.0042  Score=42.62  Aligned_cols=22  Identities=32%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++++|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4688999999999999999876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.09  E-value=0.0029  Score=47.54  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998743

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.09  E-value=0.0044  Score=44.16  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=19.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..--|.++|.+|+|||||...+.+
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~   52 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTT   52 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHh
Confidence            345678999999999999988876

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=96.09  E-value=0.017  Score=41.53  Aligned_cols=34  Identities=18%  Similarity=0.237  Sum_probs=26.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .|.|-|.-|+||||.++.+++.+...-....+..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4678899999999999999998876644444443

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=96.08  E-value=0.014  Score=43.44  Aligned_cols=35  Identities=20%  Similarity=0.313  Sum_probs=27.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      ..|.+.|+.|+||||++..+.+.+... +.....+.
T Consensus        28 ~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~r   63 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTR   63 (236)
T ss_dssp             CEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeeec
Confidence            588999999999999999999977554 44344443

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.08  E-value=0.0035  Score=50.72  Aligned_cols=26  Identities=35%  Similarity=0.399  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.++|.+|+||||++..+.....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999999888654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.05  E-value=0.015  Score=48.03  Aligned_cols=28  Identities=21%  Similarity=0.248  Sum_probs=22.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+|.|+|.+|+||||++..+...+..
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3678999999999999999998876543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.04  E-value=0.0079  Score=48.95  Aligned_cols=29  Identities=31%  Similarity=0.316  Sum_probs=24.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...+|.++|++|+||||++..++..+...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999988865543

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.04  E-value=0.0046  Score=44.70  Aligned_cols=27  Identities=19%  Similarity=0.118  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+|.|.|+.|+||||+++.+..++.-.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~   33 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIP   33 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            589999999999999999999876543

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.03  E-value=0.0044  Score=46.21  Aligned_cols=25  Identities=32%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...++|.|++|+||||+|+.+....
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            3467999999999999999998865

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.03  E-value=0.0046  Score=48.23  Aligned_cols=27  Identities=19%  Similarity=0.085  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+|.|.|+.|+||||||..++....
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCC
Confidence            356889999999999999999988653

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.02  E-value=0.012  Score=45.10  Aligned_cols=24  Identities=25%  Similarity=0.236  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.++-|+|.+|+||||||..++-.
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368899999999999999988765

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=96.02  E-value=0.0036  Score=43.78  Aligned_cols=21  Identities=38%  Similarity=0.455  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998765

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.01  E-value=0.006  Score=42.60  Aligned_cols=24  Identities=21%  Similarity=0.061  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....|.++|.+|+|||||...+..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~   70 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTT   70 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            355788999999999999998876

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=96.01  E-value=0.011  Score=45.70  Aligned_cols=42  Identities=14%  Similarity=0.138  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           52 ERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        52 ~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +...+.+...+.. ..-.+.+-++|++|+||||+|+.+...+.
T Consensus         8 ~~~~~~l~~~i~~-~~~~~a~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A            8 RPDFEKLVASYQA-GRGHHALLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             HHHHHHHHHHHHT-TCCCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHc-CCcceeEEEECCCCchHHHHHHHHHHHHh
Confidence            3445555555542 22245688999999999999999998764

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.00  E-value=0.0043  Score=50.02  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...+++|+|+.|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456999999999999999999987

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.00  E-value=0.0044  Score=43.28  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+..|+|+.|+|||||..+++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3788999999999999999876

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.99  E-value=0.013  Score=43.27  Aligned_cols=27  Identities=33%  Similarity=0.419  Sum_probs=24.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -..|.+.|+.|+||||+++.+.+.+..
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            468889999999999999999998765

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=95.99  E-value=0.0093  Score=44.93  Aligned_cols=27  Identities=33%  Similarity=0.615  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++|.|.|-||+||||+|..+...+..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~   28 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAE   28 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHH
Confidence            367888899999999999998886543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.98  E-value=0.0064  Score=41.08  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999998873

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.96  E-value=0.0046  Score=43.09  Aligned_cols=23  Identities=30%  Similarity=0.647  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-|.++|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999998863

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.96  E-value=0.019  Score=41.95  Aligned_cols=34  Identities=26%  Similarity=0.397  Sum_probs=26.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v  103 (144)
                      ..|.+-|+.|+||||++..+...+... +....+.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~~~   38 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   38 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCcceee
Confidence            468899999999999999999987554 4344443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.95  E-value=0.0052  Score=42.67  Aligned_cols=23  Identities=30%  Similarity=0.496  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...|.++|.+|+|||||...+..
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45788999999999999999987

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.95  E-value=0.0083  Score=48.70  Aligned_cols=29  Identities=17%  Similarity=0.119  Sum_probs=24.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ..+|.++|++|+||||+++.+.......|
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            45788999999999999999998765444

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.94  E-value=0.014  Score=41.19  Aligned_cols=34  Identities=21%  Similarity=0.169  Sum_probs=24.5

Q ss_pred             EEEEEE-ccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIW-GIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~-G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ++|.|+ +-||+||||+|..+...+...=..++.+
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlli   36 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVV   36 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence            578888 5799999999999888665432334444

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=95.94  E-value=0.0049  Score=41.51  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-|.++|.+|+|||||...+.+.
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46789999999999999998763

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.93  E-value=0.0083  Score=47.48  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      -.+++|+|+.|+||||+...+...+.
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            46899999999999999999887544

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.92  E-value=0.0049  Score=48.31  Aligned_cols=26  Identities=15%  Similarity=0.236  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...++|+|+.|+|||||++.+.....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46889999999999999999988543

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=95.91  E-value=0.0052  Score=41.53  Aligned_cols=22  Identities=32%  Similarity=0.652  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~   25 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999999877

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=95.89  E-value=0.0073  Score=41.16  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEEECCCCccHHHHHHHHhc
Confidence            45688999999999999998866

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.88  E-value=0.004  Score=47.10  Aligned_cols=24  Identities=33%  Similarity=0.347  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++.-.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999998754

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.87  E-value=0.0054  Score=41.25  Aligned_cols=22  Identities=27%  Similarity=0.616  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~   25 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999988876

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.87  E-value=0.0061  Score=43.51  Aligned_cols=25  Identities=20%  Similarity=0.065  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ....|.++|.+|+|||||...+.+.
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998874

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.87  E-value=0.0062  Score=49.05  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+|.|.|+.|+||||||..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5789999999999999999988653

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.86  E-value=0.0083  Score=47.32  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .+++|.|+.|+|||||.+.+...+.
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccc
Confidence            4899999999999999999987553

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.86  E-value=0.0028  Score=46.45  Aligned_cols=24  Identities=29%  Similarity=0.184  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.+|+|.|+.|+||||+++.+...
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999998765

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.85  E-value=0.01  Score=42.24  Aligned_cols=23  Identities=26%  Similarity=-0.022  Sum_probs=18.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .++.++|+.|+||||++..+..+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~   26 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEI   26 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            36778999999999999655554

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.85  E-value=0.0055  Score=42.59  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||.+.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            456789999999999999877764

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.84  E-value=0.005  Score=48.76  Aligned_cols=23  Identities=39%  Similarity=0.395  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            47899999999999999999873

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.83  E-value=0.012  Score=46.13  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+++|+|.+|+|||||...+....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999998754

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=95.83  E-value=0.0058  Score=41.48  Aligned_cols=24  Identities=21%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999988763

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=95.82  E-value=0.0059  Score=41.36  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-|.++|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998773

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.82  E-value=0.0059  Score=41.27  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -|.++|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4688999999999999988763

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=95.80  E-value=0.0058  Score=42.52  Aligned_cols=24  Identities=17%  Similarity=0.153  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998763

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.80  E-value=0.015  Score=43.26  Aligned_cols=27  Identities=15%  Similarity=0.027  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      -.|-+.|.||+||||+|..+.......
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            346678999999999999888865443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.80  E-value=0.0032  Score=52.85  Aligned_cols=48  Identities=17%  Similarity=0.102  Sum_probs=33.1

Q ss_pred             CCccchHHHHHHHHHHhhcCCC---------CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSA---------GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~---------~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +.++|.+..+..+...+.....         .-..+-++|++|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            5789999876666544432210         00157799999999999999988743

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.80  E-value=0.0059  Score=47.90  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.++.|+|++|+|||||+..++...
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999988765

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=95.78  E-value=0.0086  Score=40.97  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~   30 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVN   30 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHh
Confidence            456788999999999999998876

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.77  E-value=0.005  Score=41.71  Aligned_cols=22  Identities=27%  Similarity=0.736  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999999876

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.76  E-value=0.0064  Score=41.08  Aligned_cols=22  Identities=18%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4578999999999999999876

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=95.75  E-value=0.0097  Score=40.67  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...-|.++|.+|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567889999999999999998774

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.75  E-value=0.0066  Score=41.02  Aligned_cols=20  Identities=30%  Similarity=0.292  Sum_probs=18.3

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 i~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            67999999999999999876

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.75  E-value=0.0058  Score=48.29  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47899999999999999999873

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=95.74  E-value=0.0066  Score=41.55  Aligned_cols=23  Identities=22%  Similarity=0.570  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~   29 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVT   29 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHc
Confidence            45678999999999999999876

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.73  E-value=0.0044  Score=47.99  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|+|+.|+|||||++.+..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            5789999999999999999876

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.73  E-value=0.0057  Score=41.42  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            468999999999999998753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.73  E-value=0.0087  Score=40.61  Aligned_cols=21  Identities=29%  Similarity=0.479  Sum_probs=18.5

Q ss_pred             EEEEEEccCCCchHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      .-|.++|.+|+|||||...+.
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            457899999999999999875

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.73  E-value=0.006  Score=48.48  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHhcC
Confidence            57899999999999999998763

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.72  E-value=0.005  Score=47.25  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            478999999999999999998743

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.72  E-value=0.02  Score=44.94  Aligned_cols=29  Identities=28%  Similarity=0.421  Sum_probs=23.8

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ....+++.+.|.||+||||+|..++..+.
T Consensus        15 ~~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           15 HDSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            34467888889999999999998887655

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.70  E-value=0.0073  Score=42.13  Aligned_cols=25  Identities=20%  Similarity=0.489  Sum_probs=21.5

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .....|.++|.+|+|||||...+.+
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~   45 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3466788999999999999998875

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=95.70  E-value=0.0062  Score=48.19  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCC
Confidence            47899999999999999999873

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.69  E-value=0.007  Score=41.33  Aligned_cols=25  Identities=24%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...-|.++|.+|+|||||...+.+.
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3567889999999999999998873

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.69  E-value=0.0064  Score=42.15  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999998763

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.68  E-value=0.0064  Score=48.17  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            47899999999999999999873

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.68  E-value=0.0064  Score=48.31  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            47899999999999999999873

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=95.68  E-value=0.01  Score=40.15  Aligned_cols=22  Identities=18%  Similarity=0.305  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4578999999999999998875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.68  E-value=0.0072  Score=41.39  Aligned_cols=24  Identities=33%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....|.++|.+|+|||||...+.+
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456788999999999999998865

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=95.68  E-value=0.012  Score=48.61  Aligned_cols=28  Identities=4%  Similarity=0.055  Sum_probs=24.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...+|-+.|+.|+||||+|+.+..++..
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3467888999999999999999998764

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.67  E-value=0.011  Score=41.21  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....-|.++|.+|+|||||...+.+
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~   38 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLAS   38 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhc
Confidence            3456788999999999999998865

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.66  E-value=0.0065  Score=48.50  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+..-
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcC
Confidence            47899999999999999999873

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=95.66  E-value=0.014  Score=42.25  Aligned_cols=25  Identities=36%  Similarity=0.680  Sum_probs=21.0

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhcc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      |.|.|-||+||||+|..+...+...
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~   27 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASD   27 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHC
Confidence            5668999999999999998876543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.65  E-value=0.0073  Score=41.74  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999999887

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.65  E-value=0.0073  Score=41.68  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-|.++|.+|+|||||...+.+.
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998873

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=95.64  E-value=0.045  Score=39.64  Aligned_cols=30  Identities=23%  Similarity=0.499  Sum_probs=24.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      ..|.|-|.-|+||||+++.+++.+...++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~v   32 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYDV   32 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSCE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCCE
Confidence            367889999999999999999987554443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.64  E-value=0.0067  Score=48.22  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            47899999999999999999873

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=95.64  E-value=0.0076  Score=40.91  Aligned_cols=23  Identities=35%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            35678999999999999999876

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.63  E-value=0.014  Score=47.11  Aligned_cols=28  Identities=25%  Similarity=0.197  Sum_probs=23.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++.++|++|+||||++..++..+...
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5689999999999999999998865543

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.63  E-value=0.0087  Score=46.19  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+.++.|.|+.|+|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            3678999999999999999999864

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.62  E-value=0.0067  Score=50.62  Aligned_cols=26  Identities=31%  Similarity=0.542  Sum_probs=23.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++.|+|+.|+|||||++.+...+..
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCChHHHHHHHHHHhhcc
Confidence            68899999999999999999997653

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=95.62  E-value=0.0075  Score=42.44  Aligned_cols=22  Identities=32%  Similarity=0.324  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..|.++|.+|+|||||...+.+
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999999886

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=95.62  E-value=0.0062  Score=46.73  Aligned_cols=21  Identities=33%  Similarity=0.619  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|+|..|+|||||...++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            448999999999999999764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.60  E-value=0.0055  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCccHHHHHHHHHcC
Confidence            47899999999999999999874

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=95.60  E-value=0.0079  Score=41.36  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~   40 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMY   40 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHhh
Confidence            45678999999999999999886

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=95.60  E-value=0.0079  Score=41.51  Aligned_cols=25  Identities=36%  Similarity=0.623  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...-|.++|.+|+|||||...+.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3556789999999999999998863

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.59  E-value=0.0079  Score=42.16  Aligned_cols=23  Identities=22%  Similarity=0.288  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .--|.|+|.+|+|||||...+.+
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~   42 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLT   42 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999987766

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=95.59  E-value=0.008  Score=41.37  Aligned_cols=22  Identities=23%  Similarity=0.211  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4578999999999999988876

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.59  E-value=0.0088  Score=40.88  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHhc
Confidence            456778999999999999998865

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.58  E-value=0.008  Score=41.74  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.|+|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            446789999999999999998874

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=95.58  E-value=0.0065  Score=41.76  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~   29 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLT   29 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999999877

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=95.58  E-value=0.008  Score=42.12  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .--|.++|.+|+|||||...+.+
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~   43 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLT   43 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHh
Confidence            45678999999999999988876

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.58  E-value=0.008  Score=42.00  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~   47 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTR   47 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHhc
Confidence            45788999999999999999877

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.58  E-value=0.0081  Score=41.50  Aligned_cols=23  Identities=17%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~   32 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIE   32 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHc
Confidence            45678999999999999999876

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.57  E-value=0.0084  Score=41.60  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ....|.++|.+|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            3457889999999999999998774

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=95.56  E-value=0.0083  Score=40.95  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4578899999999999999876

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.56  E-value=0.0099  Score=43.85  Aligned_cols=26  Identities=15%  Similarity=0.175  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|+.|+||||+|+.+..++.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999988643

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.56  E-value=0.041  Score=46.25  Aligned_cols=47  Identities=17%  Similarity=0.220  Sum_probs=29.3

Q ss_pred             HHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           53 RHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        53 ~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+.+.+...+.     .++..|+|++|+||||++..+...+...-...+.++
T Consensus       184 ~Q~~av~~~l~-----~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~  230 (624)
T 2gk6_A          184 SQVYAVKTVLQ-----RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  230 (624)
T ss_dssp             HHHHHHHHHHT-----CSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEE
T ss_pred             HHHHHHHHHhc-----CCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            34444454442     135679999999999988877665443233445554

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.54  E-value=0.0036  Score=46.68  Aligned_cols=26  Identities=19%  Similarity=0.157  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ....|.|.|+.|+||||+++.+.+.+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999887765

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=95.53  E-value=0.0086  Score=41.13  Aligned_cols=22  Identities=23%  Similarity=0.161  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~   30 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTS   30 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998875

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=95.53  E-value=0.0087  Score=41.07  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+..
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~   34 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVK   34 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHc
Confidence            34678999999999999998876

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=95.53  E-value=0.012  Score=41.44  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3567889999999999999998763

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=95.52  E-value=0.0081  Score=41.56  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTG   23 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998876

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=95.52  E-value=0.0041  Score=44.11  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=20.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-..++|+|..|+|||||...+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999987754

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=95.51  E-value=0.0089  Score=41.17  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45678999999999999999885

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.50  E-value=0.005  Score=48.55  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47899999999999999999873

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.49  E-value=0.0089  Score=41.99  Aligned_cols=24  Identities=29%  Similarity=0.535  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998773

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.48  E-value=0.013  Score=40.03  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHh
Confidence            45678999999999999998865

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.47  E-value=0.0094  Score=40.87  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~   32 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKD   32 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHh
Confidence            45678999999999999999876

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.45  E-value=0.014  Score=40.71  Aligned_cols=23  Identities=26%  Similarity=0.608  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45678999999999999999877

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=95.45  E-value=0.023  Score=42.45  Aligned_cols=26  Identities=19%  Similarity=0.533  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .....|.++|.+|+|||||...+.+.
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999998863

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=95.44  E-value=0.027  Score=41.94  Aligned_cols=25  Identities=20%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .....|.++|.+|+|||||...+..
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~   58 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIG   58 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3456789999999999999999876

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.44  E-value=0.018  Score=46.40  Aligned_cols=28  Identities=25%  Similarity=0.219  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .-.+++|.|+.|+||||+...+...+..
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            3468999999999999999999886643

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.44  E-value=0.03  Score=40.34  Aligned_cols=32  Identities=25%  Similarity=0.238  Sum_probs=23.8

Q ss_pred             EEEEE-ccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           71 ILGIW-GIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        71 ~i~I~-G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      +|.|+ +-||+||||+|..+...+...- .++.+
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~g-~Vlli   34 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQG-ETLLI   34 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTTS-CEEEE
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEE
Confidence            56776 5799999999999988765543 44444

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=95.44  E-value=0.0078  Score=42.68  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.42  E-value=0.0096  Score=42.06  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~   46 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVE   46 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHh
Confidence            355678999999999999999887

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.42  E-value=0.0088  Score=47.81  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+..-
T Consensus        48 e~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            57899999999999999999863

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.42  E-value=0.053  Score=45.65  Aligned_cols=46  Identities=17%  Similarity=0.157  Sum_probs=27.1

Q ss_pred             HHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHH-HHHHHHhhccCCcEEEEc
Q 032234           53 RHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIA-DAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        53 ~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa-~~v~~~~~~~f~~~~~v~  104 (144)
                      .+.+.+...|..    ..+.-|+||||+|||+.. ..++.-+...  ..+.++
T Consensus       193 ~Q~~AV~~al~~----~~~~lI~GPPGTGKT~ti~~~I~~l~~~~--~~ILv~  239 (646)
T 4b3f_X          193 SQKEAVLFALSQ----KELAIIHGPPGTGKTTTVVEIILQAVKQG--LKVLCC  239 (646)
T ss_dssp             HHHHHHHHHHHC----SSEEEEECCTTSCHHHHHHHHHHHHHHTT--CCEEEE
T ss_pred             HHHHHHHHHhcC----CCceEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEE
Confidence            445556555532    135678999999999655 4454444332  345554

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=95.41  E-value=0.0098  Score=41.70  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~   45 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQ   45 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHhc
Confidence            45678999999999999999876

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.41  E-value=0.011  Score=41.43  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            346789999999999999998874

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.41  E-value=0.016  Score=40.68  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.|+|.+|+|||||...+..
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~   36 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMY   36 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHh
Confidence            356788999999999999998876

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.40  E-value=0.01  Score=41.35  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.|+|.+|+|||||...+.+
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~   38 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFAD   38 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHc
Confidence            355788999999999999999887

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.39  E-value=0.01  Score=46.69  Aligned_cols=25  Identities=32%  Similarity=0.537  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.|+.|+|||||.+.+.+...
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999999998654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.38  E-value=0.025  Score=41.09  Aligned_cols=29  Identities=24%  Similarity=0.329  Sum_probs=23.7

Q ss_pred             CeEEEEEEc-cCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWG-IGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G-~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..++|+|++ -||+||||+|..+...+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~   32 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQE   32 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhC
Confidence            357888886 69999999999998876554

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=95.38  E-value=0.049  Score=42.53  Aligned_cols=28  Identities=36%  Similarity=0.470  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ...++.+.|.||+||||+|..++..+..
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~   52 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAE   52 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHH
Confidence            3445555689999999999988775443

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.35  E-value=0.0078  Score=47.35  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|+|+.|+|||||++.+...+
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            478999999999999999998744

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.34  E-value=0.011  Score=42.13  Aligned_cols=24  Identities=17%  Similarity=0.122  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...|.++|.+|+|||||...+.+.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456789999999999999998763

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=95.34  E-value=0.031  Score=43.93  Aligned_cols=30  Identities=20%  Similarity=0.230  Sum_probs=24.6

Q ss_pred             CCeEEEEEEc-cCCCchHHHHHHHHHHhhcc
Q 032234           67 AGVYILGIWG-IGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        67 ~~~~~i~I~G-~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ...++|+|++ -||+||||+|..++..+...
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~  171 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANM  171 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhC
Confidence            4578999986 89999999999988865443

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=95.34  E-value=0.011  Score=42.40  Aligned_cols=25  Identities=16%  Similarity=0.104  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...-|.++|.+|+|||||...+.+.
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998773

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.34  E-value=0.0089  Score=43.82  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..|.|.|++|+||||||..+..+.
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            467899999999999999998764

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.33  E-value=0.028  Score=45.87  Aligned_cols=35  Identities=9%  Similarity=-0.092  Sum_probs=26.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v~  104 (144)
                      .++.|.|.+|+||||||..++...... =..++|++
T Consensus       243 ~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          243 EVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             eEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            477889999999999999888766543 23566664

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=95.33  E-value=0.011  Score=41.20  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            457889999999999999998773

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=95.33  E-value=0.011  Score=41.04  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999998773

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=95.32  E-value=0.011  Score=41.37  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999998873

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=95.32  E-value=0.011  Score=41.33  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~   43 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTD   43 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHhc
Confidence            44678999999999999998876

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=95.32  E-value=0.011  Score=41.27  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~   44 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIAS   44 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHc
Confidence            45678999999999999999886

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=95.31  E-value=0.011  Score=41.72  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            35678999999999999988874

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=95.31  E-value=0.028  Score=44.10  Aligned_cols=34  Identities=12%  Similarity=0.010  Sum_probs=25.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc--CCcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH--FEGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~--f~~~~~v~  104 (144)
                      ++-|+|++|+|||||+..+.......  =..++|+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId   65 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD   65 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            67899999999999998877654433  23456665

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.30  E-value=0.011  Score=42.20  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~   48 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQ   48 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHh
Confidence            355778999999999999998876

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=95.29  E-value=0.0078  Score=42.64  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=19.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      ...-|.++|.+|+|||||...+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            45678899999999999999874

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=95.28  E-value=0.011  Score=41.58  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=20.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.|+|.+|+|||||...+..
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~   50 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCK   50 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            356788999999999999998876

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.26  E-value=0.012  Score=41.02  Aligned_cols=23  Identities=17%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+..
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHc
Confidence            45788999999999999999876

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.25  E-value=0.009  Score=48.72  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||++.++.-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            57899999999999999999884

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.25  E-value=0.017  Score=47.46  Aligned_cols=20  Identities=25%  Similarity=0.203  Sum_probs=18.4

Q ss_pred             EEEEEEccCCCchHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v   89 (144)
                      .+++|.|+.|+|||||++.+
T Consensus        40 e~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           40 RSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             SEEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHH
Confidence            58899999999999999985

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.25  E-value=0.0095  Score=41.93  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~   30 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYAD   30 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999998876

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.23  E-value=0.015  Score=42.48  Aligned_cols=24  Identities=17%  Similarity=0.362  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....|+++|.+|+|||||...+..
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g   51 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILG   51 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHcC
Confidence            456789999999999999999877

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=95.22  E-value=0.012  Score=41.53  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~   30 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSD   30 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999999876

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.21  E-value=0.0083  Score=41.33  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456778999999999999988763

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=95.19  E-value=0.0094  Score=42.00  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999987766

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=95.18  E-value=0.014  Score=44.72  Aligned_cols=24  Identities=21%  Similarity=0.427  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...++|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            457999999999999999998873

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=95.17  E-value=0.014  Score=49.40  Aligned_cols=26  Identities=27%  Similarity=0.325  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|.+.|++|+||||+|+.+...+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34688999999999999999999876

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.17  E-value=0.013  Score=41.40  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+..
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~   42 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVE   42 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999999876

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=95.17  E-value=0.028  Score=41.49  Aligned_cols=27  Identities=22%  Similarity=0.041  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++-++|..|+||||++..+..+...+
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~   39 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYA   39 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            577789999999999998887765443

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.15  E-value=0.013  Score=40.87  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998863

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=95.15  E-value=0.014  Score=43.60  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            356899999999999999998763

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.15  E-value=0.013  Score=41.59  Aligned_cols=23  Identities=26%  Similarity=0.170  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+..
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~   47 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSK   47 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHhc
Confidence            35678999999999999998876

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=95.14  E-value=0.043  Score=42.83  Aligned_cols=29  Identities=24%  Similarity=0.353  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+++-+.|-||+||||+|..++..+...
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~   43 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKV   43 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTS
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhC
Confidence            35677778999999999999988866543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=95.10  E-value=0.014  Score=41.44  Aligned_cols=23  Identities=22%  Similarity=0.143  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~   31 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTS   31 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999998876

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=95.10  E-value=0.018  Score=48.22  Aligned_cols=26  Identities=23%  Similarity=0.243  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.|.|++|+||||+|+.+...+.
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            46789999999999999999998764

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=95.09  E-value=0.038  Score=46.14  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++.|.|.+|+||||++..+.......
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~  231 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESL  231 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            578899999999999999988865443

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=95.09  E-value=0.017  Score=40.25  Aligned_cols=25  Identities=28%  Similarity=0.297  Sum_probs=21.1

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....-|.|+|.+|+|||||...+.+
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            3467889999999999999998765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=95.07  E-value=0.012  Score=47.73  Aligned_cols=25  Identities=32%  Similarity=0.511  Sum_probs=21.2

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..+.-++|+|+.|+|||||.+.++.
T Consensus        40 Gei~~vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           40 GFCFNILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             CCEEEEEEECSTTSSSHHHHHHHHT
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhC
Confidence            3344599999999999999999876

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=95.07  E-value=0.031  Score=40.38  Aligned_cols=34  Identities=24%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             EEEEEEc-cCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWG-IGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G-~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ++|.|++ -||+||||+|..+...+...-..++.+
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la~~g~~Vlli   37 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAV   37 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            5778875 699999999999988765442333334

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=95.06  E-value=0.021  Score=39.65  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=20.1

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            445688999999999999998743

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.06  E-value=0.045  Score=45.47  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+|.+.|++|+||||+|+.+...+.
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            46889999999999999999988654

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.05  E-value=0.013  Score=46.89  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .++.|+|++|+|||||+..++-
T Consensus       179 ei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          179 SITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHH
Confidence            5889999999999999997653

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=95.04  E-value=0.014  Score=46.21  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++++|++|+|||||...+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            47899999999999999998864

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=95.04  E-value=0.013  Score=40.55  Aligned_cols=24  Identities=29%  Similarity=0.284  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhc
Confidence            456778999999999999998875

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.04  E-value=0.014  Score=44.71  Aligned_cols=21  Identities=29%  Similarity=0.501  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      .++++.|+.|+|||||.+.+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            478999999999999999998

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=95.03  E-value=0.015  Score=41.23  Aligned_cols=24  Identities=21%  Similarity=0.278  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.|+|.+|+|||||...+.+
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~   51 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKT   51 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHhh
Confidence            356788999999999999998876

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=95.03  E-value=0.015  Score=41.09  Aligned_cols=23  Identities=30%  Similarity=0.183  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~   47 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSK   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34678999999999999998876

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.03  E-value=0.014  Score=40.97  Aligned_cols=23  Identities=22%  Similarity=0.205  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~   42 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTT   42 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999988764

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=95.01  E-value=0.022  Score=41.60  Aligned_cols=26  Identities=19%  Similarity=0.250  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+|+|.|++|+||+|+|..+.+..
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            45699999999999999999987754

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=95.01  E-value=0.018  Score=41.57  Aligned_cols=25  Identities=16%  Similarity=0.198  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ....|.++|.+|+|||||...+.+.
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999988763

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.01  E-value=0.013  Score=41.20  Aligned_cols=23  Identities=26%  Similarity=0.195  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999998854

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=95.01  E-value=0.045  Score=40.51  Aligned_cols=36  Identities=25%  Similarity=0.238  Sum_probs=26.3

Q ss_pred             CCeEEEEEEc-cCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           67 AGVYILGIWG-IGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        67 ~~~~~i~I~G-~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ...++|.|++ -||+||||+|..+...+. .=..++.+
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g~~Vlli   61 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLI   61 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TTSCEEEE
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CCCCEEEE
Confidence            3568888875 799999999999988776 42334444

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=95.01  E-value=0.022  Score=43.12  Aligned_cols=25  Identities=12%  Similarity=0.252  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .....|+|+|.+|+|||||...+..
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g   46 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVG   46 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHT
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHC
Confidence            3567899999999999999998876

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=95.00  E-value=0.012  Score=40.76  Aligned_cols=23  Identities=30%  Similarity=0.166  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~   43 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSM   43 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            35678999999999999999875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.00  E-value=0.015  Score=47.10  Aligned_cols=25  Identities=16%  Similarity=0.359  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..++|.|+.|+|||||.+.+.....
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccC
Confidence            5789999999999999999988653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.00  E-value=0.014  Score=48.46  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.++...
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998843

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.99  E-value=0.015  Score=40.46  Aligned_cols=24  Identities=29%  Similarity=0.145  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.++|.+|+|||||...+.+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            346778999999999999999874

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=94.96  E-value=0.015  Score=41.13  Aligned_cols=24  Identities=17%  Similarity=0.340  Sum_probs=20.3

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...-|.|+|.+|+|||||...+.+
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHh
Confidence            355678999999999999998864

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=94.95  E-value=0.015  Score=41.65  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45678999999999999998865

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=94.95  E-value=0.019  Score=39.38  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+..|+|+.|.|||||..+++-
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5778999999999999998875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.94  E-value=0.014  Score=48.32  Aligned_cols=23  Identities=30%  Similarity=0.541  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999874

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.91  E-value=0.0099  Score=46.27  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|+|+.|+|||||.+.+...+
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998754

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.89  E-value=0.0084  Score=41.39  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=10.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.++|.+|+|||||...+.+
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             EEEEEEECCCCC-----------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999988765

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.89  E-value=0.02  Score=41.99  Aligned_cols=26  Identities=27%  Similarity=0.449  Sum_probs=23.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|.+-|+.|+||||++..+.+.+..
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            47889999999999999999998765

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=94.88  E-value=0.037  Score=40.50  Aligned_cols=26  Identities=31%  Similarity=0.487  Sum_probs=21.4

Q ss_pred             EEEEEEc-cCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWG-IGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G-~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++|.|++ -||+||||+|..+...+..
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~   29 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQ   29 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHh
Confidence            5788875 6999999999998886654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.88  E-value=0.013  Score=48.73  Aligned_cols=24  Identities=50%  Similarity=0.745  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|+|+.|+|||||++.++...
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999998743

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=94.87  E-value=0.069  Score=42.00  Aligned_cols=47  Identities=21%  Similarity=0.262  Sum_probs=32.5

Q ss_pred             CCccchHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..++|.......+...+.. ..... .+-|+|.+|+||+++|+.++...
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~-~vli~GesGtGKe~lAr~ih~~s  176 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKA-PVLITGESGTGKEIVARLIHRYS  176 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCS-CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHhhhhhhhccch-hheEEeCCCchHHHHHHHHHHhc
Confidence            4678877766666554432 12223 35589999999999999998853

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.85  E-value=0.016  Score=40.70  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhc
Confidence            44678999999999999998865

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=94.84  E-value=0.053  Score=40.83  Aligned_cols=27  Identities=26%  Similarity=0.319  Sum_probs=21.9

Q ss_pred             EEEEEEc-cCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWG-IGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G-~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++|.|++ -||+||||+|..+...+...
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~~La~~   32 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVTALLYG   32 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHHHC
Confidence            5788874 79999999999998866543

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=94.83  E-value=0.018  Score=41.30  Aligned_cols=23  Identities=22%  Similarity=0.136  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~   49 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAK   49 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHhc
Confidence            34677999999999999998876

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=94.79  E-value=0.053  Score=41.78  Aligned_cols=26  Identities=38%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .++-+.|.||+||||+|..++..+..
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA~   40 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMAR   40 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHHH
Confidence            44455689999999999988875543

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=94.79  E-value=0.017  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcC
Confidence            78999999999999999998874

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=94.77  E-value=0.022  Score=42.02  Aligned_cols=24  Identities=17%  Similarity=0.339  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ....|+|+|.+|+|||||...+..
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~   44 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILR   44 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999998876

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=94.75  E-value=0.023  Score=41.68  Aligned_cols=25  Identities=40%  Similarity=0.518  Sum_probs=21.8

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+...||+.|.-|+||||+++.+..
T Consensus         7 ~~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            7 HHMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CSCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999998865

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=94.74  E-value=0.023  Score=42.46  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+|+|.|+.|+||||+|..+...
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~   24 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999998764

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=94.73  E-value=0.022  Score=43.69  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .....|+|+|.+|+|||||...+..
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g   32 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLG   32 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhC
Confidence            3467899999999999999999877

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.73  E-value=0.018  Score=44.04  Aligned_cols=22  Identities=27%  Similarity=0.534  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .++++.|+.|+|||||.+.+..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHST
T ss_pred             CeEEEECCCCCcHHHHHHHhcc
Confidence            4789999999999999999876

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.72  E-value=0.019  Score=40.89  Aligned_cols=23  Identities=30%  Similarity=0.293  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~   47 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTD   47 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhc
Confidence            45678999999999999998876

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.71  E-value=0.018  Score=48.54  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++...
T Consensus       383 ei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          383 EVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            378999999999999999998843

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=94.70  E-value=0.019  Score=41.66  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999988763

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.65  E-value=0.017  Score=47.96  Aligned_cols=23  Identities=39%  Similarity=0.684  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        26 ei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           26 TILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            58999999999999999998763

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=94.63  E-value=0.021  Score=41.00  Aligned_cols=23  Identities=17%  Similarity=0.439  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..-|.|+|.+|+|||||...+.+
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~   35 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTK   35 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECcCCCCHHHHHHHHhc
Confidence            45678999999999999998876

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=94.63  E-value=0.015  Score=40.48  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..-|.++|.+|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999988653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.62  E-value=0.019  Score=48.36  Aligned_cols=23  Identities=35%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++.-
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcC
Confidence            46899999999999999999874

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.61  E-value=0.015  Score=46.84  Aligned_cols=21  Identities=33%  Similarity=0.631  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |+|+|..|+|||||...++..
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            599999999999999998763

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=94.58  E-value=0.05  Score=38.96  Aligned_cols=26  Identities=19%  Similarity=0.119  Sum_probs=20.9

Q ss_pred             EEEEEEc-cCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWG-IGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G-~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++|.|.| -||+||||++..+...+..
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~   28 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKA   28 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4678887 5999999999998886543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.57  E-value=0.02  Score=48.24  Aligned_cols=23  Identities=39%  Similarity=0.635  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            48899999999999999998874

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.54  E-value=0.041  Score=45.22  Aligned_cols=26  Identities=23%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.|++|+|||||+..++.....
T Consensus       282 ~i~~i~G~~GsGKSTLl~~l~g~~~~  307 (525)
T 1tf7_A          282 SIILATGATGTGKTLLVSRFVENACA  307 (525)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            58899999999999999999886543

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.52  E-value=0.032  Score=45.70  Aligned_cols=33  Identities=30%  Similarity=0.589  Sum_probs=25.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccC-CcEEEE
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHF-EGSYFA  103 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f-~~~~~v  103 (144)
                      .++|+|.+|+|||||+..+.......+ +.++++
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~  186 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFA  186 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEE
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhccCcEEEEe
Confidence            578999999999999999988765433 333444

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=94.50  E-value=0.015  Score=41.44  Aligned_cols=26  Identities=19%  Similarity=0.203  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .....|.|+|.+|+|||||...+...
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            34567889999999999999998774

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=94.49  E-value=0.072  Score=42.69  Aligned_cols=48  Identities=19%  Similarity=0.277  Sum_probs=33.7

Q ss_pred             CCCccchHHHHHHHHHHhhcC---------CCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           45 NKDLVGVERHIKQTEPLLCTG---------SAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~---------~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..+-.|.++..+.+...+...         ......++|+|.+|+|||||...+...
T Consensus       147 A~~g~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          147 AEHNINLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             ccCCCCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            344556677777776555321         123467899999999999999998764

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=94.47  E-value=0.053  Score=42.77  Aligned_cols=28  Identities=21%  Similarity=0.300  Sum_probs=23.4

Q ss_pred             CCeEEEEEE-ccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIW-GIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~-G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...++|.|+ |-||+||||+|..+...+.
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~La  134 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAMR  134 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHH
Confidence            457889888 6899999999999888664

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=94.47  E-value=0.11  Score=45.15  Aligned_cols=35  Identities=20%  Similarity=0.252  Sum_probs=23.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++..|+|++|+||||++..+...+...-...+.+.
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~  406 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  406 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEE
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEE
Confidence            46679999999999988877665443222344443

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=94.46  E-value=0.011  Score=45.84  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|+|++|+|||||...+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHhcc
Confidence            4889999999999999998864

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.44  E-value=0.021  Score=47.54  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..++|+|+.|+|||||++.+..-
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998773

---

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	144
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-06

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 43.3 bits (101), Expect = 3e-06
 Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 5/82 (6%)

Query: 47  DLVGVERHIKQ-TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK----ISEHFEGSY 101
                E H+ +  + L        + L + G  G GK+ IA    +K    I  +++   
Sbjct: 21  TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV 80

Query: 102 FAHNVRDAEETDRIKDLQKQLL 123
           +  +   A ++         L+
Sbjct: 81  WLKDSGTAPKSTFDLFTDILLM 102

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	144
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.63
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.8
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.65
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.63
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.62
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.61
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.6
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.6
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.57
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.57
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.49
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.46
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.37
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.37
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.21
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.14
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.07
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	98.04
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.0
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.99
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.95
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.93
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.92
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.91
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.86
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.84
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.82
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.81
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.81
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.8
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.8
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.8
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.79
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.78
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.74
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.72
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.72
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.71
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.68
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.67
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.65
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.65
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.63
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.63
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.62
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.61
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.56
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.54
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.52
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.5
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.48
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.45
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.42
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.42
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.38
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.37
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.36
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.36
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.32
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.25
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.24
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	97.22
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	97.21
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.18
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.17
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.12
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.1
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.08
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.08
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.07
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.07
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.05
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.05
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.04
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.0
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.99
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.98
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.92
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.86
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.84
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.83
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.81
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.79
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.78
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.78
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.74
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.7
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.7
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.7
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.69
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.68
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.66
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.66
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.59
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.57
d1okkd2	207	GTPase domain of the signal recognition particle r	96.57
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.55
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.5
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.47
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.46
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.46
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.43
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.43
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.42
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.39
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.39
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.38
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.37
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.36
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.36
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.35
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.33
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.33
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.32
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.32
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.32
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.27
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.27
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.25
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.22
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.2
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.18
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	96.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.12
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.12
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.06
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.06
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.99
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.96
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.95
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.95
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.94
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.94
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.92
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.92
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.92
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.91
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.89
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.87
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.86
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.86
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.85
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.82
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.81
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.78
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.77
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.74
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.74
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.73
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.72
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.7
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.7
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.7
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.69
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.69
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.69
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.67
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.66
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.65
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.65
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.64
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.63
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.62
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.62
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.58
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.56
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.56
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.55
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.53
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.52
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.51
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.49
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.46
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.46
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.45
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.44
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.43
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.4
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.4
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.39
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.36
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.32
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.31
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.28
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.25
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.25
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.25
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.25
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.24
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.23
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.16
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	95.14
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.14
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.13
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.13
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.12
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.07
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.03
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.99
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.98
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.94
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.92
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.92
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.87
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.78
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.71
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.64
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.43
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.43
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.38
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.35
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.29
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.99
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.89
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.83
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.82
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	93.81
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.76
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.74
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.68
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.59
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.44
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.44
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.42
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.35
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.29
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	93.22
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	92.93
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	92.71
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.69
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.67
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.64
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	92.59
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.92
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	91.84
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	91.46
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.94
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.63
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	90.17
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	89.82
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	89.73
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	89.32
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	88.89
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	88.43
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	87.91
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.5
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.45
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.42
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.69
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	86.23
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	83.77
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	83.24
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	82.56
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.44
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	82.42
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	81.95
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	81.4
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	81.01
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	80.69

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.63  E-value=4.7e-16  Score=117.77  Aligned_cols=82  Identities=17%  Similarity=0.177  Sum_probs=61.6

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHH----hhccCCcEEEEccccc
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNK----ISEHFEGSYFAHNVRD  108 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~----~~~~f~~~~~v~~~~~  108 (144)
                      .+++.....+..+.++||+.+++.+.++|.. .+.+..+|+||||||+||||||+.+|++    ...+|++++|++    
T Consensus         8 ~~~l~~~~~p~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~----   83 (277)
T d2a5yb3           8 DRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----   83 (277)
T ss_dssp             HHHHHHTTCBCCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----
T ss_pred             cccccccCCCCCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEE----
Confidence            3343333334456789999999999988753 4566889999999999999999999996    455699999999    


Q ss_pred             ccchhhHHHHH
Q 032234          109 AEETDRIKDLQ  119 (144)
Q Consensus       109 ~s~~~~~~~l~  119 (144)
                      ++..++...+.
T Consensus        84 vs~~~~~~~l~   94 (277)
T d2a5yb3          84 DSGTAPKSTFD   94 (277)
T ss_dssp             CCCCSTTHHHH
T ss_pred             ecCCCCHHHHH
Confidence            55544444333

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.80  E-value=3.3e-08  Score=71.60  Aligned_cols=60  Identities=18%  Similarity=0.192  Sum_probs=46.1

Q ss_pred             CCCccchHHHHHHHHHHhhc----CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCc-EEEEc
Q 032234           45 NKDLVGVERHIKQTEPLLCT----GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEG-SYFAH  104 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~----~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~-~~~v~  104 (144)
                      +..++||+.+++.+.++|..    .......+.|+|++|+||||+|+.+++.+...... .+++.
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~   79 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN   79 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEec
Confidence            35699999999998888752    23446788899999999999999999988665443 34443

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.65  E-value=1.1e-08  Score=73.59  Aligned_cols=59  Identities=22%  Similarity=0.340  Sum_probs=47.9

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      |.++.+|+.+   .+++|.+..++.|..|+...  ..+.+-++|++|+||||+|+.+.+.+...
T Consensus         5 w~eKyrP~~~---~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~   63 (224)
T d1sxjb2           5 WVEKYRPQVL---SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGR   63 (224)
T ss_dssp             HHHHTCCSSG---GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGG
T ss_pred             hHhHhCCCCH---HHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhcc
Confidence            5667777776   88999999999999998643  34457799999999999999999876543

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.63  E-value=1.1e-08  Score=73.90  Aligned_cols=59  Identities=27%  Similarity=0.294  Sum_probs=48.5

Q ss_pred             HHHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           32 EVLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        32 ~v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .|.++..|..+   .+++|.+..++.+..|+...  ..+.+-++|++|+||||+|+.+.+.+..
T Consensus        13 ~w~~ky~P~~~---~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          13 PWVEKYRPQRL---DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             CHHHHTCCCST---TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             hHHHHhCCCCH---HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHh
Confidence            36677777766   88999999999999999643  4556789999999999999999987643

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.62  E-value=1.7e-08  Score=73.06  Aligned_cols=51  Identities=24%  Similarity=0.367  Sum_probs=40.8

Q ss_pred             CCccchHHHHHHHHHHhhc---CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT---GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~---~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++++|.+..++.|..++..   ....++.+-++|++|+||||+|+.+++....+
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            7899999999998888753   12346667799999999999999999876443

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.61  E-value=1.4e-08  Score=73.43  Aligned_cols=58  Identities=21%  Similarity=0.251  Sum_probs=44.1

Q ss_pred             cccccCCCCCCccchHHHHHHHHHHhhc---CCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           37 LEETFQSHNKDLVGVERHIKQTEPLLCT---GSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        37 ~~~~~~~~~~~~vGr~~~~~~l~~~l~~---~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ++|..+   .+++|.+..++.+..++..   .....+.+-++|++|+||||+|+.+++....+|
T Consensus         3 ~RP~~~---~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~   63 (238)
T d1in4a2           3 LRPKSL---DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI   63 (238)
T ss_dssp             TSCSSG---GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE
T ss_pred             CCCCcH---HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCc
Confidence            344444   7899999999999888742   123355677999999999999999999765443

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.60  E-value=2.8e-08  Score=72.18  Aligned_cols=60  Identities=23%  Similarity=0.264  Sum_probs=46.5

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhc---------------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCT---------------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~---------------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      |.++..|..+   .+++|.+..+++|..|+..               .....+.+-++|++|+||||+|+++++....
T Consensus         4 W~eky~P~~~---~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~   78 (253)
T d1sxja2           4 WTVKYAPTNL---QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY   78 (253)
T ss_dssp             HHHHTCCSSG---GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             cccCcCCCCH---HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3456666665   8899999999999888742               1123567889999999999999999997643

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.60  E-value=3.4e-08  Score=71.56  Aligned_cols=52  Identities=21%  Similarity=0.326  Sum_probs=40.4

Q ss_pred             ccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           40 TFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        40 ~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .+.....+|+||+.+++.+.+..      .+++.|+|++|+|||||+..+.+.....+
T Consensus         6 ~p~~~~~~f~GR~~el~~l~~~~------~~~i~i~G~~G~GKTsLl~~~~~~~~~~~   57 (283)
T d2fnaa2           6 SPKDNRKDFFDREKEIEKLKGLR------APITLVLGLRRTGKSSIIKIGINELNLPY   57 (283)
T ss_dssp             SCCCSGGGSCCCHHHHHHHHHTC------SSEEEEEESTTSSHHHHHHHHHHHHTCCE
T ss_pred             CCCCChhhCCChHHHHHHHHhcc------CCEEEEEcCCCCcHHHHHHHHHHHCCCCe
Confidence            33345688999999998876532      35788999999999999999988765443

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.57  E-value=2.7e-08  Score=71.43  Aligned_cols=57  Identities=19%  Similarity=0.247  Sum_probs=45.8

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |.++.+|+.+   .+++|.+..++.|..|+...  ..+.+-++|++|+||||+|+.+++.+.
T Consensus         4 w~ekyrP~~~---~divg~~~~~~~L~~~i~~~--~~~~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2           4 WVEKYRPETL---DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             HHHHTCCSSG---GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             hhhhhCCCCH---HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChhHHHHHHHHHhh
Confidence            4566777666   78999999999999998643  344466999999999999999998754

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.57  E-value=2.8e-08  Score=71.37  Aligned_cols=57  Identities=14%  Similarity=0.188  Sum_probs=45.6

Q ss_pred             HHhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           33 VLKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        33 v~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |.++.+|+.+   .+++|.+..++.+..|+..  ...+.+-++|++|+||||+++.+++++.
T Consensus         2 w~~ky~P~~~---~diig~~~~~~~l~~~i~~--~~~~~lll~Gp~G~GKTtl~~~i~~~l~   58 (237)
T d1sxjd2           2 WVEKYRPKNL---DEVTAQDHAVTVLKKTLKS--ANLPHMLFYGPPGTGKTSTILALTKELY   58 (237)
T ss_dssp             HHHHTCCSST---TTCCSCCTTHHHHHHHTTC--TTCCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cchhhCCCCH---HHccCcHHHHHHHHHHHHc--CCCCeEEEECCCCCChHHHHHHHHHHHc
Confidence            4556666666   7899999999999999853  3345577999999999999999998753

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.49  E-value=2.9e-07  Score=66.85  Aligned_cols=52  Identities=27%  Similarity=0.314  Sum_probs=38.7

Q ss_pred             CCCCccchHHHHHHHHHHhh----cC--CCC-eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           44 HNKDLVGVERHIKQTEPLLC----TG--SAG-VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        44 ~~~~~vGr~~~~~~l~~~l~----~~--~~~-~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+..++||+.+++.+..++.    ..  ..+ ..++.++|++|+||||+++.+++.+..
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~   72 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSE   72 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHh
Confidence            45789999999999877652    11  122 334567899999999999999997643

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.46  E-value=4.6e-08  Score=70.88  Aligned_cols=55  Identities=20%  Similarity=0.168  Sum_probs=42.3

Q ss_pred             hhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           35 KRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        35 ~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++.+|..+   .+++|.+...+.+..++... ...+.+-++|++|+||||+|+.+++.+
T Consensus         3 eky~P~~~---~diig~~~~~~~L~~~~~~~-~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           3 DKYRPKSL---NALSHNEELTNFLKSLSDQP-RDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             TTTCCCSG---GGCCSCHHHHHHHHTTTTCT-TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             cccCCCCH---HHccCcHHHHHHHHHHHHcC-CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            44555544   78999998888888887532 234456799999999999999999864

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.37  E-value=4.9e-07  Score=64.46  Aligned_cols=82  Identities=18%  Similarity=0.227  Sum_probs=58.8

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc------cCCcEEEEccccccc----chhhH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE------HFEGSYFAHNVRDAE----ETDRI  115 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~------~f~~~~~v~~~~~~s----~~~~~  115 (144)
                      +..+||+++++++...|...  .-.-+.++|.+|+|||+++..++.++..      -....+|.-++..+-    -.-.+
T Consensus        22 d~~igRd~Ei~~l~~iL~r~--~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~   99 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF   99 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhcc--CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHH
Confidence            35889999999999988532  2345679999999999999999987642      235677776554431    12357


Q ss_pred             HHHHHHHHHHhhCC
Q 032234          116 KDLQKQLLYELLND  129 (144)
Q Consensus       116 ~~l~~~ll~~l~~~  129 (144)
                      +.-.+.++..+...
T Consensus       100 E~rl~~il~e~~~~  113 (195)
T d1jbka_         100 EERLKGVLNDLAKQ  113 (195)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhcC
Confidence            77777888887543

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.37  E-value=9.3e-07  Score=65.86  Aligned_cols=84  Identities=23%  Similarity=0.345  Sum_probs=60.9

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc------cCCcEEEEcccccc----cchhhH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE------HFEGSYFAHNVRDA----EETDRI  115 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~------~f~~~~~v~~~~~~----s~~~~~  115 (144)
                      ..++||+++++.+...|...  .-.-+.++|++|+|||+++..++.++..      .....+|.-++..+    +-...+
T Consensus        18 d~~igRd~Ei~~l~~iL~r~--~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CcccChHHHHHHHHHHHhcC--ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            34899999999999988532  2345569999999999999999987532      13567777665444    235677


Q ss_pred             HHHHHHHHHHhhCCCC
Q 032234          116 KDLQKQLLYELLNDRN  131 (144)
Q Consensus       116 ~~l~~~ll~~l~~~~~  131 (144)
                      +..++.++..+....+
T Consensus        96 e~r~~~i~~~~~~~~~  111 (268)
T d1r6bx2          96 EKRFKALLKQLEQDTN  111 (268)
T ss_dssp             HHHHHHHHHHHSSSSC
T ss_pred             HHHHHHHHHHhhccCC
Confidence            7888888888876655

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.21  E-value=1.2e-06  Score=63.50  Aligned_cols=57  Identities=23%  Similarity=0.240  Sum_probs=45.3

Q ss_pred             HhhcccccCCCCCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           34 LKRLEETFQSHNKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        34 ~~~~~~~~~~~~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++.+|+.+   .+++|.+..++.+..++.... -.+.+-++|++|+||||+|+.+.+.+.
T Consensus         3 ~~KyrP~~~---~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_           3 ARKWRPQTF---ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             HHHTCCSSG---GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             hhhhCCCCH---HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            456677666   789999999999999886332 244577999999999999999988653

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.14  E-value=2.6e-06  Score=66.41  Aligned_cols=91  Identities=13%  Similarity=0.234  Sum_probs=58.2

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhc------cCCcEEEEcccccccc----hhhH
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISE------HFEGSYFAHNVRDAEE----TDRI  115 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~------~f~~~~~v~~~~~~s~----~~~~  115 (144)
                      +.++||+.+++.+...|.....  .-+.++|.+|+|||+|+..++.++..      -.+.++|.-++..+-.    ...+
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~   99 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEF   99 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhH
Confidence            3488999999999998863322  22357799999999999888886532      1457788877765532    3466


Q ss_pred             HHHHHHHHHHhhCCC-C----cchHHHH
Q 032234          116 KDLQKQLLYELLNDR-N----VRNVRFQ  138 (144)
Q Consensus       116 ~~l~~~ll~~l~~~~-~----i~~~~~~  138 (144)
                      +.-+..++..+...+ +    |+.+...
T Consensus       100 e~r~~~i~~~~~~~~~~~ilfide~h~l  127 (387)
T d1qvra2         100 EERLKAVIQEVVQSQGEVILFIDELHTV  127 (387)
T ss_dssp             HHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             HHHHHHHHHHhccCCCceEEEeccHHHH
Confidence            667777888876654 3    5555444

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.07  E-value=1e-06  Score=59.78  Aligned_cols=27  Identities=15%  Similarity=0.227  Sum_probs=23.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ++.|.|.|++|+||||||+.+......
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~   33 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNT   33 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            578999999999999999999987643

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.04  E-value=6.3e-06  Score=56.61  Aligned_cols=50  Identities=26%  Similarity=0.294  Sum_probs=34.8

Q ss_pred             HHHHHHHHh-hcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           54 HIKQTEPLL-CTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        54 ~~~~l~~~l-~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .++.|+.-+ .....+..+|+|.|++|+||||||+.+...+.........+
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~   56 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVF   56 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhccccccceec
Confidence            344444332 23455677999999999999999999998776655444433

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.00  E-value=1.2e-06  Score=58.20  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .|-+.|++|+||||+|+.++.++...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~~   29 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNME   29 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            57788999999999999999987544

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.99  E-value=2.7e-06  Score=57.43  Aligned_cols=35  Identities=17%  Similarity=0.147  Sum_probs=27.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEE
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFA  103 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v  103 (144)
                      -.+|-+.|++|+||||+|+.+..++... ++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhh
Confidence            3578899999999999999999988654 4444444

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.95  E-value=3.9e-06  Score=56.40  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +++++|+|..|+|||||+..+...+..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            3689999999999999999999876544

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.93  E-value=7.7e-06  Score=59.02  Aligned_cols=31  Identities=23%  Similarity=0.339  Sum_probs=25.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      ..+..|-++|++|+||||||+.+++.....|
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~~~~   60 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQGNV   60 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhcce
Confidence            3466788999999999999999999876554

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.92  E-value=2.4e-05  Score=57.03  Aligned_cols=91  Identities=9%  Similarity=0.033  Sum_probs=50.1

Q ss_pred             CCccchHHHHHHHHHH----h---hc-CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEcccccccchhhHHH
Q 032234           46 KDLVGVERHIKQTEPL----L---CT-GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAHNVRDAEETDRIKD  117 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~----l---~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~~~~~~s~~~~~~~  117 (144)
                      ..++|..+.++.+.+-    +   .. .....+-|-++|++|+|||++|+++++....+|-...--..+...+ ......
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~-~~~~~~   87 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFS-ETAKCQ   87 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCC-HHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccccccccccccccccc-ccchhh
Confidence            4477766655544321    1   11 2234667889999999999999999998766553221111111111 122234


Q ss_pred             HHHHHHHHhhCCCC----cchHHH
Q 032234          118 LQKQLLYELLNDRN----VRNVRF  137 (144)
Q Consensus       118 l~~~ll~~l~~~~~----i~~~~~  137 (144)
                      ..++++........    ++.++.
T Consensus        88 ~i~~if~~A~~~~p~il~iDEid~  111 (246)
T d1d2na_          88 AMKKIFDDAYKSQLSCVVVDDIER  111 (246)
T ss_dssp             HHHHHHHHHHTSSEEEEEECCHHH
T ss_pred             hhhhhhhhhhhcccceeehhhhhh
Confidence            45566666555443    566554

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=3.5e-06  Score=58.01  Aligned_cols=35  Identities=26%  Similarity=0.258  Sum_probs=28.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+|-++|++|+||||+|+.+...+...+....++.
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            46778899999999999999998877766655553

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.86  E-value=3.5e-06  Score=56.71  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..|.|.|++|+||||+|+.+..++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            3567999999999999999988753

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.84  E-value=5.2e-06  Score=55.62  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            578899999999999999998764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.82  E-value=9.6e-06  Score=59.47  Aligned_cols=51  Identities=27%  Similarity=0.358  Sum_probs=36.2

Q ss_pred             CCccchHHHHHHHHHHhhc-----------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLCT-----------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~-----------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..++.+.+.+..           .-.-.+-+-++|++|+|||++|+++++....+
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~   65 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF   65 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe
Confidence            4577888887777664321           11224567899999999999999999865433

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=97.81  E-value=1.5e-05  Score=58.31  Aligned_cols=51  Identities=25%  Similarity=0.289  Sum_probs=36.5

Q ss_pred             CCccchHHHHHHHHHHhh---c-------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLC---T-------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~---~-------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+++|.++.++.+.+.+.   .       .....+-+-++|++|+|||+||+++++....+
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~   69 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP   69 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC
Confidence            578898887776654331   1       11234568899999999999999999876433

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.81  E-value=8.3e-06  Score=54.96  Aligned_cols=28  Identities=25%  Similarity=0.439  Sum_probs=24.6

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ...+++.|.|++|+||||+|+.+..++.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568899999999999999999998764

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=6.6e-06  Score=55.50  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=22.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +.|.|.|++|+|||||++.+...+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            46889999999999999999987643

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.80  E-value=7.1e-06  Score=54.43  Aligned_cols=23  Identities=35%  Similarity=0.359  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46789999999999999988664

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.80  E-value=6.5e-06  Score=61.96  Aligned_cols=48  Identities=19%  Similarity=0.187  Sum_probs=34.6

Q ss_pred             CccchHHHHHHHHHHhh-------cC-----CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLC-------TG-----SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~-------~~-----~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|++..++.+...+.       ..     ....+.+.++||+|+|||.||+++++...
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            57898888877754331       00     11346677999999999999999998653

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.79  E-value=1e-05  Score=59.49  Aligned_cols=50  Identities=22%  Similarity=0.250  Sum_probs=36.1

Q ss_pred             CCccchHHHHHHHHHHh---hc-------CCCCeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           46 KDLVGVERHIKQTEPLL---CT-------GSAGVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l---~~-------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      .+++|.+..++++.+.+   ..       .....+.+-++|++|+|||++|+.+++....
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~   71 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV   71 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC
Confidence            57888888877765433   11       0122456789999999999999999987643

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.78  E-value=6.4e-06  Score=56.04  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=22.0

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccC
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      |.+.||+|+||||+++.++.++.-.|
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            44669999999999999999876654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.74  E-value=0.00011  Score=52.24  Aligned_cols=59  Identities=19%  Similarity=0.115  Sum_probs=39.5

Q ss_pred             CCccchHH--HHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           46 KDLVGVER--HIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        46 ~~~vGr~~--~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ..++|...  ....+.++..........+-|||++|+|||.|+.++++.........+++.
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~   71 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS   71 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             hccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec
Confidence            34556432  223344454433333445779999999999999999998877766777775

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.72  E-value=8.4e-06  Score=54.82  Aligned_cols=26  Identities=15%  Similarity=0.212  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|.|.|++|+||||+|+.+...+.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            36889999999999999999999754

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.72  E-value=8.8e-06  Score=55.32  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=22.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccC
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      |.+.||+|+||||+++.++.++.-.|
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~~~   28 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDLVF   28 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            66789999999999999999875443

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.71  E-value=1.6e-05  Score=53.80  Aligned_cols=27  Identities=19%  Similarity=0.452  Sum_probs=23.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++|.|.|++|+||||+++.+...+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            589999999999999999999877554

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.68  E-value=2.4e-05  Score=54.21  Aligned_cols=28  Identities=18%  Similarity=0.185  Sum_probs=23.8

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +.+|.++|.+|+||||+|+.++..+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4578999999999999999999866543

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.67  E-value=2.2e-05  Score=53.18  Aligned_cols=27  Identities=19%  Similarity=0.213  Sum_probs=23.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ++++|+|..|+|||||+..+...+..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999998876554

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.65  E-value=2e-05  Score=54.56  Aligned_cols=27  Identities=19%  Similarity=0.229  Sum_probs=23.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+.+|.|.|++|+||||+|+.+++..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998865

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.65  E-value=1.7e-05  Score=55.08  Aligned_cols=28  Identities=21%  Similarity=0.294  Sum_probs=24.9

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+..++|.|.|++|+||||+|+.++.+.
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568899999999999999999998865

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.63  E-value=1.8e-05  Score=53.25  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...|.|.|++|+||||+|+.+.+++
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3467889999999999999998865

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.63  E-value=1.4e-05  Score=54.55  Aligned_cols=26  Identities=19%  Similarity=0.245  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .|.+.|++|+||||+|+.+++++.-.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~   29 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYE   29 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35678999999999999999987544

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.62  E-value=1.1e-05  Score=54.48  Aligned_cols=24  Identities=46%  Similarity=0.462  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|.|.|++|+||||+|+.+..++
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999997754

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.61  E-value=3.6e-05  Score=52.15  Aligned_cols=30  Identities=27%  Similarity=0.258  Sum_probs=25.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEG   99 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~   99 (144)
                      ++|.|.|++|+||||+++.+...+......
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~   31 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGIN   31 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            578899999999999999999987655333

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.56  E-value=2.1e-05  Score=55.06  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|.|-||+|+||||+|+.+.+++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999999764

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.54  E-value=7.7e-05  Score=51.24  Aligned_cols=26  Identities=19%  Similarity=0.245  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ....+|.++|++|+||||+|+.+...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45679999999999999999887543

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.52  E-value=1.8e-05  Score=58.27  Aligned_cols=51  Identities=25%  Similarity=0.347  Sum_probs=34.7

Q ss_pred             CCccchHHHHHHHHHHhh---c--------CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           46 KDLVGVERHIKQTEPLLC---T--------GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~---~--------~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++.|.+..++.+...+.   .        .-...+-|-++|++|+|||+||+++++....+
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~   68 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN   68 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc
Confidence            457777766555544331   0        11234567799999999999999998876443

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.50  E-value=3.4e-05  Score=52.18  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      |.|.|++|+|||||++.+...+.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            78999999999999999998553

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.48  E-value=0.0001  Score=55.85  Aligned_cols=38  Identities=24%  Similarity=0.348  Sum_probs=28.7

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+...+.....+..+|||.|+||+|||||...+...+
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            33433343445678999999999999999999988754

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.45  E-value=7.1e-05  Score=56.81  Aligned_cols=35  Identities=23%  Similarity=0.269  Sum_probs=27.5

Q ss_pred             hhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           62 LCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        62 l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +.....+..+|||.|+||+|||||...+.......
T Consensus        47 ~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~   81 (327)
T d2p67a1          47 IMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIRE   81 (327)
T ss_dssp             HGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             hhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            33345668999999999999999999887755443

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=5.5e-05  Score=53.05  Aligned_cols=27  Identities=15%  Similarity=0.463  Sum_probs=23.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      +-+|||.|..|+||||+|..+...+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            468999999999999999999887644

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.42  E-value=5.8e-05  Score=52.02  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++++| |.|++|+||||+|+.++.+.
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999998865

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=97.38  E-value=0.00011  Score=56.46  Aligned_cols=32  Identities=22%  Similarity=0.082  Sum_probs=26.9

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+..+.+.++||+|+|||++|..+++.+...
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            44556789999999999999999999976543

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.37  E-value=4.8e-05  Score=52.48  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..|.|.|++|+||||+|+.+.++.
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999998876

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=0.00016  Score=54.29  Aligned_cols=48  Identities=19%  Similarity=0.232  Sum_probs=36.3

Q ss_pred             CccchHHHHHHHHHHhh-----cC--CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLC-----TG--SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~-----~~--~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|.+..++.+...+.     ..  +....++.++|++|+|||.||+.++..+.
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc
Confidence            58899998888765432     11  22355788999999999999999998653

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=6.6e-05  Score=51.77  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578899999999999999999865

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.32  E-value=6.1e-05  Score=51.18  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.++.+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6689999999999999998865

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.25  E-value=8.3e-05  Score=52.14  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|-|++|+||||+|+.+..++.
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578889999999999999988753

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.24  E-value=9e-05  Score=50.61  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.++...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6688999999999999999876

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=97.22  E-value=0.00019  Score=51.99  Aligned_cols=27  Identities=30%  Similarity=0.538  Sum_probs=23.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      +.|.|+|-||+||||+|..+...+...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~   28 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC
Confidence            678999999999999999988876544

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=97.21  E-value=0.00011  Score=50.62  Aligned_cols=23  Identities=39%  Similarity=0.443  Sum_probs=20.2

Q ss_pred             CeEEEEEEccCCCchHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      ++-+|||.|+.|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999874

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.18  E-value=0.00011  Score=50.25  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=20.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.++.+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6689999999999999999876

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.17  E-value=9.4e-05  Score=51.42  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      --|.|.|++|+||||+|+.+..+.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            345578999999999999998865

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.12  E-value=0.00014  Score=50.22  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++|.|.|++|+||||+|+.+..+.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999998864

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.10  E-value=0.00026  Score=50.02  Aligned_cols=36  Identities=17%  Similarity=0.180  Sum_probs=27.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEE
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFA  103 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v  103 (144)
                      .-.+|-+.|++|+||||||+.+..++.. ......++
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~l   59 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRL   59 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEE
Confidence            4568889999999999999999987643 23344444

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.08  E-value=0.00015  Score=49.33  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=19.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.++.+.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999998865

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=97.08  E-value=0.0005  Score=51.61  Aligned_cols=38  Identities=32%  Similarity=0.360  Sum_probs=28.9

Q ss_pred             HHHhhcC-CCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           59 EPLLCTG-SAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        59 ~~~l~~~-~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..+|... ...+.+|||.|..|+||||+|+.+...+...
T Consensus        69 ~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~  107 (308)
T d1sq5a_          69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRW  107 (308)
T ss_dssp             HHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTS
T ss_pred             HHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhh
Confidence            3344332 3457899999999999999999998877543

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.07  E-value=0.00013  Score=50.60  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhcc
Q 032234           72 LGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      |.|.|++|+|||||++.+.......
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~~~   27 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHSSI   27 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCc
Confidence            6699999999999999998865433

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.07  E-value=0.00016  Score=49.38  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 032234           72 LGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      |.|.|++|+||||+|+.++.+.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3477999999999999998865

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.05  E-value=0.00013  Score=50.41  Aligned_cols=27  Identities=30%  Similarity=0.524  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .|.|+|++|+|||||++.+..+....|
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            467999999999999999988654333

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=97.05  E-value=0.00013  Score=54.69  Aligned_cols=45  Identities=22%  Similarity=0.187  Sum_probs=32.2

Q ss_pred             CCCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           45 NKDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        45 ~~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -++++|++..++.+.-...  ..+.+.+-+.|.+|+||||||+.+..
T Consensus         6 f~~I~Gq~~~kral~laa~--~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAV--DPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHH--CGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHh--ccCCCeEEEECCCCccHHHHHHHHHH
Confidence            3678999977765542221  11224578999999999999999976

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.04  E-value=0.00038  Score=49.15  Aligned_cols=36  Identities=19%  Similarity=0.176  Sum_probs=30.4

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      -.++-|+|.+|+|||+||..+......+....+|++
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            458889999999999999999888777777777775

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00052  Score=49.58  Aligned_cols=37  Identities=24%  Similarity=0.359  Sum_probs=27.3

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      ..+...+.  ....++|.+.|-||+||||+|-.+...+.
T Consensus         9 ~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA   45 (279)
T d1ihua2           9 SALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLA   45 (279)
T ss_dssp             HHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444443  45678999999999999999888777543

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.99  E-value=0.00038  Score=51.81  Aligned_cols=32  Identities=22%  Similarity=0.326  Sum_probs=26.3

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ....+-+|||.|..|+|||||+..+...+...
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence            34457799999999999999999998876543

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.98  E-value=0.0002  Score=49.04  Aligned_cols=24  Identities=21%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++|.|.|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            467899999999999999988764

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.92  E-value=0.00041  Score=53.17  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ...+-+.||.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4567889999999999999998754

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.86  E-value=0.00068  Score=48.26  Aligned_cols=40  Identities=18%  Similarity=0.273  Sum_probs=28.2

Q ss_pred             CCCCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           65 GSAGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        65 ~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .+....+|.++|+.|+||||.+-.++..+..+-..+..++
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEe
Confidence            3456789999999999999887776665544334444443

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.0012  Score=46.36  Aligned_cols=34  Identities=12%  Similarity=0.167  Sum_probs=27.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ..|.|-|+-|+||||+++.+.+.+...-..+.++
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            4688899999999999999999887654444444

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.83  E-value=0.00064  Score=49.22  Aligned_cols=28  Identities=36%  Similarity=0.361  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      -.++|-+.|-||+||||+|-.++..+..
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~   34 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAE   34 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHH
Confidence            3667888999999999999888776544

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.81  E-value=0.00077  Score=48.76  Aligned_cols=46  Identities=20%  Similarity=0.182  Sum_probs=32.5

Q ss_pred             CccchHHHHHHHHHHhhc-CCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           47 DLVGVERHIKQTEPLLCT-GSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~~-~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++||....++.+.+.+.. ...+.+ |-|+|..|+|||++|+.++...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~p-vlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECP-VLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSC-EEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHHhc
Confidence            367777777776655543 222333 5688999999999999999854

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.00037  Score=47.94  Aligned_cols=28  Identities=25%  Similarity=0.529  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +.|.|+||.|+|||||++.+..+....|
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~   31 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRF   31 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCe
Confidence            5688999999999999999887654444

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.78  E-value=0.00086  Score=47.48  Aligned_cols=36  Identities=19%  Similarity=0.124  Sum_probs=25.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      +.++|.++|++|+||||.+-.++.....+-.....+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~li   44 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLV   44 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            467899999999999988877766554443334444

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.78  E-value=0.0012  Score=46.27  Aligned_cols=42  Identities=17%  Similarity=0.218  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           51 VERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        51 r~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+...+.+.+.+... .-.+.+-++|++|+||||+|..++..+
T Consensus         7 ~~~~~~~l~~~~~~~-~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           7 LRPDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GHHHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcC-CcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            345566777666422 224458899999999999999988854

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.74  E-value=0.00083  Score=49.02  Aligned_cols=28  Identities=32%  Similarity=0.578  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .+.|.|+|-||+||||+|..+...+...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~   29 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEM   29 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3678889999999999999887755443

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.70  E-value=0.00078  Score=47.23  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +|.|.|+.|+|||||...+.....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            688999999999999999876443

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.70  E-value=0.00044  Score=51.48  Aligned_cols=28  Identities=18%  Similarity=0.256  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..++|||.|.+|+||||+++.+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4569999999999999999998886543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.70  E-value=0.00082  Score=50.68  Aligned_cols=27  Identities=22%  Similarity=0.289  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .++-++|+||+|||.||+.++..+...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~  150 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGK  150 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCC
Confidence            345568999999999999999987543

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.69  E-value=0.001  Score=46.44  Aligned_cols=35  Identities=23%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             EEEEEE-ccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIW-GIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~-G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++|.|+ |-||+||||+|..++..+...-..++++.
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            788998 68999999999999887665544555553

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.68  E-value=0.0017  Score=48.53  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=35.5

Q ss_pred             CccchHHHHHHHHHHhh-----cCC--CCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           47 DLVGVERHIKQTEPLLC-----TGS--AGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        47 ~~vGr~~~~~~l~~~l~-----~~~--~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .++|++..++.+...+.     ..+  ....++.++|+.|+|||.||+.+.+.+-
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~   78 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   78 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhc
Confidence            47899888887755332     112  2244788999999999999999999763

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.66  E-value=0.0012  Score=46.84  Aligned_cols=29  Identities=21%  Similarity=0.468  Sum_probs=23.6

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .....+|.++|+.|+||||.+-.++..+.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34578999999999999988877777654

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.66  E-value=0.0016  Score=45.54  Aligned_cols=68  Identities=9%  Similarity=-0.036  Sum_probs=43.4

Q ss_pred             HHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhhccC---CcEEEEcccccccchhhHHHHHHHHHHHhh
Q 032234           54 HIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKISEHF---EGSYFAHNVRDAEETDRIKDLQKQLLYELL  127 (144)
Q Consensus        54 ~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f---~~~~~v~~~~~~s~~~~~~~l~~~ll~~l~  127 (144)
                      +++.+.+++.  ......+-++|++|+||||+|..+.+.+...+   ....++.   +....-++..+.. +.+.+.
T Consensus         2 ~~~~l~~~i~--~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~---~~~~~I~Id~IR~-i~~~~~   72 (198)
T d2gnoa2           2 QLETLKRIIE--KSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID---PEGENIGIDDIRT-IKDFLN   72 (198)
T ss_dssp             HHHHHHHHHH--TCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC---CSSSCBCHHHHHH-HHHHHT
T ss_pred             HHHHHHHHHh--cCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEe---CCcCCCCHHHHHH-HHHHHh
Confidence            4566777775  33578899999999999999999998764432   2344543   1222335555544 444443

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.59  E-value=0.00043  Score=47.50  Aligned_cols=27  Identities=26%  Similarity=0.133  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ....+|+|-|.-|+||||+++.+....
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999887644

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.57  E-value=0.0013  Score=51.57  Aligned_cols=52  Identities=19%  Similarity=0.213  Sum_probs=36.6

Q ss_pred             CCccchHHHHHHHHHHhh-------cC-CC----CeEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           46 KDLVGVERHIKQTEPLLC-------TG-SA----GVYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~-------~~-~~----~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      .++||++..++.+.-.+.       .. ..    ...-|-++||.|+|||.||+.++..+.-.|
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPF   77 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   77 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            468899888877643221       11 11    134678899999999999999999775554

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.57  E-value=0.0014  Score=46.31  Aligned_cols=37  Identities=19%  Similarity=0.191  Sum_probs=26.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      +.++|.++|+.|+||||.+-.++.....+=....+++
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit   41 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA   41 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4578999999999999988777776543323455554

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.55  E-value=0.0013  Score=45.18  Aligned_cols=26  Identities=23%  Similarity=0.484  Sum_probs=22.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      .|.|-|+-|+||||+++.+.+.+...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57889999999999999999987654

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.50  E-value=0.00078  Score=47.13  Aligned_cols=21  Identities=43%  Similarity=0.596  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCchHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~   90 (144)
                      .+|||+|+.|+||||.|..+-
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            389999999999999998763

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.47  E-value=0.0032  Score=44.12  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      -.++-|+|++|+||||||..+....
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4688899999999999998876653

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.46  E-value=0.00091  Score=43.64  Aligned_cols=20  Identities=30%  Similarity=0.292  Sum_probs=17.9

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+..
T Consensus         3 ivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            56899999999999998865

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.46  E-value=0.00081  Score=48.73  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++.-
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            48899999999999999999873

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.43  E-value=0.00056  Score=48.09  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            47899999999999999999874

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.43  E-value=0.006  Score=42.10  Aligned_cols=34  Identities=26%  Similarity=0.397  Sum_probs=26.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc-CCcEEEE
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH-FEGSYFA  103 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~-f~~~~~v  103 (144)
                      +.|.|-|+-|+||||+++.+.+.+... +....+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEe
Confidence            357889999999999999999987654 4444444

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.42  E-value=0.0016  Score=43.35  Aligned_cols=31  Identities=23%  Similarity=0.202  Sum_probs=21.7

Q ss_pred             HHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           60 PLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        60 ~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +++....... -|.++|.+|+|||||...+..
T Consensus         5 ~~~~~~~k~~-kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           5 QFLGLYKKTG-KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHTCTTCCE-EEEEEEETTSSHHHHHHHHSC
T ss_pred             HhccccCCCC-EEEEECCCCCCHHHHHHHHhC
Confidence            3443333334 466999999999999988744

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.39  E-value=0.00075  Score=48.59  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|.|+.|+|||||.+.+..
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCcchhhHhccC
Confidence            4889999999999999998766

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.39  E-value=0.002  Score=44.82  Aligned_cols=35  Identities=23%  Similarity=0.285  Sum_probs=27.1

Q ss_pred             EEEEEEc-cCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWG-IGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G-~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++|.|+| -||+||||+|..++..+...-..++.+.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            6899994 7999999999999887665544555554

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.0013  Score=46.34  Aligned_cols=27  Identities=26%  Similarity=0.273  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      +++.|.|-|+-|+||||+++.+.+.+.
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            357899999999999999999998653

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=96.37  E-value=0.001  Score=45.56  Aligned_cols=25  Identities=20%  Similarity=0.489  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++++.|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            4567899999999999999999975

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=96.36  E-value=0.0011  Score=43.54  Aligned_cols=21  Identities=38%  Similarity=0.431  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |.|+|.+|+|||||...+.+.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988773

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.36  E-value=0.002  Score=45.65  Aligned_cols=37  Identities=19%  Similarity=0.143  Sum_probs=21.6

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      ....+|.++|+.|+||||.+-.++......=.....+
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~li   46 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLV   46 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            3578999999999999987766666544321234444

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.001  Score=47.94  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|.|+.|+|||||.+.++.
T Consensus        27 ei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            4889999999999999999876

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.33  E-value=0.001  Score=46.34  Aligned_cols=20  Identities=55%  Similarity=0.737  Sum_probs=18.3

Q ss_pred             EEEEEEccCCCchHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v   89 (144)
                      .+|||.|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999876

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.33  E-value=0.0012  Score=46.39  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+|.|+||+|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            467899999999999999988764

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.32  E-value=0.00086  Score=48.58  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.++.-
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            58899999999999999999773

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.32  E-value=0.0011  Score=48.01  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            47899999999999999998773

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.32  E-value=0.00099  Score=48.50  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++|+|+.|+|||||++.+..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            4789999999999999999865

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.27  E-value=0.0011  Score=47.93  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..++|+|+.|+|||||++.+..-
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            47899999999999999998763

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.27  E-value=0.0011  Score=48.41  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|+|+.|+|||||++.+..
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            4889999999999999999976

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.25  E-value=0.0012  Score=48.77  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            57899999999999999999874

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0012  Score=47.98  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++|+|+.|+|||||++.+..
T Consensus        41 e~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            5889999999999999999866

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.20  E-value=0.0014  Score=47.51  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+++|.|+.|+|||||.+.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            377899999999999999998843

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.18  E-value=0.0014  Score=47.30  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++|+|+.|+|||||++.+..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5889999999999999999866

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.17  E-value=0.0018  Score=45.65  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+|||.|..|+||||+|..+.++
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998764

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0018  Score=43.59  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++-|.|++|+||||||..+....
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHH
Confidence            588899999999999998877643

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.12  E-value=0.0012  Score=47.41  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+..-
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            47899999999999999999873

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.06  E-value=0.0019  Score=41.89  Aligned_cols=20  Identities=35%  Similarity=0.458  Sum_probs=18.3

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 I~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999998876

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=96.06  E-value=0.0067  Score=43.44  Aligned_cols=24  Identities=17%  Similarity=0.169  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++.|.|.+|+||||++..+...+
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhh
Confidence            467789999999999998887654

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.00086  Score=47.07  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .+.|.|-|+-|+||||+++.+...+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999988754

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.96  E-value=0.0022  Score=42.45  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999998876

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.95  E-value=0.0023  Score=42.78  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .|+|.|.+|+|||||...+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999998864

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.95  E-value=0.002  Score=46.46  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|+|+.|+|||||.+.+...
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58899999999999999998774

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.94  E-value=0.0022  Score=43.01  Aligned_cols=20  Identities=25%  Similarity=0.292  Sum_probs=17.8

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||+..+.+
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            56899999999999998765

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.94  E-value=0.0023  Score=42.53  Aligned_cols=20  Identities=20%  Similarity=0.463  Sum_probs=17.7

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56899999999999988776

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.92  E-value=0.0021  Score=46.38  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|.|||||.+.+..-
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            48899999999999999998773

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.92  E-value=0.004  Score=42.84  Aligned_cols=36  Identities=28%  Similarity=0.241  Sum_probs=23.7

Q ss_pred             eEEEEEEccCCCchHHHHHHH-HHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAV-FNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v-~~~~~~~f~~~~~v~  104 (144)
                      -.++-|+|.+|+|||+||..+ ++.....-...+|++
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            357788999999999999764 443333333344443

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.92  E-value=0.0026  Score=42.48  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+..|+++|.+|+|||||..++.+
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHT
T ss_pred             cccEEEEECCCCCCHHHHHHHHhC
Confidence            356789999999999999999986

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.91  E-value=0.0014  Score=47.56  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||.+.+..-
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            58899999999999999999873

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.89  E-value=0.0025  Score=43.58  Aligned_cols=23  Identities=22%  Similarity=0.150  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +.|.|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46789999999999999998763

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.87  E-value=0.0019  Score=46.89  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++|.|+.|+|||||++.+..-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            47899999999999999999774

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.86  E-value=0.0022  Score=42.45  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=17.8

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            56999999999999998755

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.86  E-value=0.0025  Score=42.53  Aligned_cols=21  Identities=24%  Similarity=0.216  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            467999999999999998766

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.85  E-value=0.0028  Score=42.66  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...|+++|.+|+|||||...+.+
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45799999999999999999886

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.82  E-value=0.0027  Score=42.22  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999988776

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.81  E-value=0.0063  Score=42.38  Aligned_cols=37  Identities=16%  Similarity=0.095  Sum_probs=26.7

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhh------ccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKIS------EHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~------~~f~~~~~v~  104 (144)
                      .=.++-|+|++|+|||++|..+.....      ..+....|+.
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~   78 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID   78 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEec
Confidence            346889999999999999988776432      2234556665

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.78  E-value=0.0044  Score=41.29  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      --|.++|.+|+|||||...+.+
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3467999999999999988755

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.0029  Score=42.29  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467899999999999998876

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.74  E-value=0.0024  Score=42.56  Aligned_cols=20  Identities=25%  Similarity=0.720  Sum_probs=17.6

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            56899999999999988765

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.74  E-value=0.0031  Score=43.68  Aligned_cols=24  Identities=17%  Similarity=0.185  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -.++-|+|.+|+|||||+..+...
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            358889999999999999876543

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.73  E-value=0.0023  Score=42.95  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .|+++|.+|+|||||...+.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999876

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.72  E-value=0.0032  Score=41.66  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999998776

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.70  E-value=0.0032  Score=41.77  Aligned_cols=20  Identities=20%  Similarity=0.373  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998776

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.0032  Score=42.11  Aligned_cols=21  Identities=19%  Similarity=0.346  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||+..+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            377999999999999998765

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.0032  Score=41.98  Aligned_cols=21  Identities=19%  Similarity=0.330  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999998875

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.69  E-value=0.0032  Score=41.99  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            367999999999999998765

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.69  E-value=0.0022  Score=43.16  Aligned_cols=20  Identities=25%  Similarity=0.479  Sum_probs=18.4

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            79999999999999999865

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.69  E-value=0.0023  Score=45.84  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+++|.|+.|+|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4789999999999999999877

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=95.67  E-value=0.0053  Score=41.27  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=19.3

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...++ |.++|.+|+|||||...+.+
T Consensus        15 ~k~~K-I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          15 NKELR-ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SSCEE-EEEEEETTSSHHHHHHHTCC
T ss_pred             CceEE-EEEECCCCCCHHHHHHHHhc
Confidence            33454 45999999999999988743

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.66  E-value=0.0029  Score=42.03  Aligned_cols=32  Identities=25%  Similarity=0.128  Sum_probs=22.9

Q ss_pred             HHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           57 QTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        57 ~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .+..++.  .... -|.++|.+|+|||||...+..
T Consensus         6 ~~~~~~~--~k~~-kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1           6 RIWRLFN--HQEH-KVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             HHHHHHT--TSCE-EEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHhC--CCeE-EEEEECCCCCCHHHHHHHHhc
Confidence            4445552  2334 466999999999999998765

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.65  E-value=0.0037  Score=43.82  Aligned_cols=27  Identities=26%  Similarity=0.447  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~   96 (144)
                      ..|.|-|+-|+||||+++.+.+.+..+
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            468899999999999999999887654

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.65  E-value=0.0035  Score=43.08  Aligned_cols=22  Identities=18%  Similarity=0.172  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +.|.|+|.+|+|||||...+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999998876

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.64  E-value=0.0035  Score=41.66  Aligned_cols=21  Identities=24%  Similarity=0.338  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999998776

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.63  E-value=0.0036  Score=41.56  Aligned_cols=21  Identities=24%  Similarity=0.521  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~   25 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999998876

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.62  E-value=0.0036  Score=41.60  Aligned_cols=20  Identities=25%  Similarity=0.413  Sum_probs=17.9

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56889999999999998876

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0036  Score=41.75  Aligned_cols=20  Identities=30%  Similarity=0.674  Sum_probs=17.9

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||+|...+.+
T Consensus         5 i~lvG~~~vGKTsli~r~~~   24 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLT   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            46889999999999998877

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.58  E-value=0.003  Score=42.14  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhC
Confidence            367899999999999998765

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.56  E-value=0.0027  Score=42.92  Aligned_cols=21  Identities=33%  Similarity=0.303  Sum_probs=18.0

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||+..+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            366899999999999988765

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=95.56  E-value=0.011  Score=42.51  Aligned_cols=38  Identities=16%  Similarity=0.318  Sum_probs=27.0

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      +.++..-+.......-.|.++|.+|+|||||...++.+
T Consensus        18 l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          18 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            33444444444444556779999999999999999873

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.0039  Score=41.58  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            467899999999999998766

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.0039  Score=41.79  Aligned_cols=21  Identities=19%  Similarity=0.347  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|..|+|||||+..+.+
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999998766

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=95.53  E-value=0.0025  Score=43.00  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            479999999999999988755

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.52  E-value=0.004  Score=41.70  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3467999999999999988776

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=95.51  E-value=0.01  Score=43.07  Aligned_cols=35  Identities=26%  Similarity=0.291  Sum_probs=26.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      ++.-|+|++|+|||||+-.++...+..=...+|+.
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            58889999999999999888776544434456664

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0043  Score=41.16  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+.+
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467899999999999998765

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.46  E-value=0.0021  Score=46.85  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++|+|+.|+|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            4789999999999999998765

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.46  E-value=0.0048  Score=42.63  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .++-|.|.+|+|||++|..++...
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            688899999999999999887643

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0045  Score=41.05  Aligned_cols=20  Identities=30%  Similarity=0.635  Sum_probs=18.2

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         6 i~viG~~~vGKTsli~~l~~   25 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67899999999999998876

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=95.44  E-value=0.0046  Score=40.94  Aligned_cols=20  Identities=30%  Similarity=0.428  Sum_probs=17.5

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.+.|.+|+|||||...+..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            56889999999999988766

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.43  E-value=0.0046  Score=41.03  Aligned_cols=20  Identities=30%  Similarity=0.622  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||+|...+.+
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            67899999999999998766

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0047  Score=41.40  Aligned_cols=21  Identities=33%  Similarity=0.229  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+.+
T Consensus         4 KivvvG~~~vGKTsLi~~~~~   24 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSK   24 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            356889999999999988766

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.40  E-value=0.0047  Score=42.22  Aligned_cols=21  Identities=24%  Similarity=0.314  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhh
Confidence            467899999999999998776

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.39  E-value=0.0059  Score=43.09  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+++..|.|.-|+|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4688899999999999999988774

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.37  E-value=0.005  Score=41.01  Aligned_cols=21  Identities=24%  Similarity=0.290  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||+..+.+
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998766

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.36  E-value=0.005  Score=41.54  Aligned_cols=20  Identities=35%  Similarity=0.571  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56899999999999998876

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.32  E-value=0.005  Score=40.33  Aligned_cols=20  Identities=25%  Similarity=0.335  Sum_probs=18.1

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57999999999999998875

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.31  E-value=0.0045  Score=41.90  Aligned_cols=18  Identities=28%  Similarity=0.479  Sum_probs=16.4

Q ss_pred             EEEEccCCCchHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v   89 (144)
                      |.+.|.+|+|||||...+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            568999999999999987

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.0055  Score=41.34  Aligned_cols=21  Identities=24%  Similarity=0.232  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||||...+.+
T Consensus         7 KivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            367899999999999988766

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.25  E-value=0.0057  Score=40.63  Aligned_cols=20  Identities=25%  Similarity=0.405  Sum_probs=17.5

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus         6 i~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            46889999999999998766

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.25  E-value=0.0093  Score=41.95  Aligned_cols=38  Identities=18%  Similarity=0.222  Sum_probs=29.8

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +..+..+|. ..+....+.++|++++|||++|..+..-+
T Consensus        40 l~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          40 LGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            345566664 45667899999999999999999888744

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.25  E-value=0.0049  Score=41.34  Aligned_cols=20  Identities=35%  Similarity=0.421  Sum_probs=17.1

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||+|...+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            56899999999999987644

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=95.25  E-value=0.0035  Score=41.66  Aligned_cols=25  Identities=16%  Similarity=0.173  Sum_probs=20.9

Q ss_pred             CCeEEEEEEccCCCchHHHHHHHHH
Q 032234           67 AGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        67 ~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++..-|+++|.+++|||||..++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            4467799999999999999987743

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.24  E-value=0.0057  Score=41.02  Aligned_cols=20  Identities=25%  Similarity=0.409  Sum_probs=18.0

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||||...+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998765

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.23  E-value=0.0057  Score=41.44  Aligned_cols=21  Identities=29%  Similarity=0.295  Sum_probs=18.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.|+|.+|+|||+|...+.+
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            367899999999999988766

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.16  E-value=0.005  Score=41.37  Aligned_cols=21  Identities=33%  Similarity=0.564  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|+|.+|+|||||..++.+
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            478999999999999998876

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.14  E-value=0.0025  Score=41.86  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      |+++|.+|+|||||..++.+.
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999874

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=95.14  E-value=0.0065  Score=40.49  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+.+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4567899999999999998765

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=95.13  E-value=0.013  Score=42.55  Aligned_cols=36  Identities=19%  Similarity=0.188  Sum_probs=27.8

Q ss_pred             HHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           58 TEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        58 l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +..+|....+....+-++|+|+.|||+++..+..-+
T Consensus        93 l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344554444567788999999999999999998843

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.0065  Score=40.55  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            477999999999999977655

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.12  E-value=0.0061  Score=40.78  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.++|.+|+|||||...+..
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3467899999999999988764

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.07  E-value=0.0068  Score=40.90  Aligned_cols=20  Identities=20%  Similarity=0.247  Sum_probs=17.8

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|..|+|||+|...+.+
T Consensus         5 ivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56899999999999988776

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.03  E-value=0.014  Score=44.17  Aligned_cols=24  Identities=33%  Similarity=0.328  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHh
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ++..|.|++|+||||++..+...+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHH
Confidence            578889999999999987766544

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.99  E-value=0.0074  Score=40.54  Aligned_cols=20  Identities=30%  Similarity=0.361  Sum_probs=17.5

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.+.|.+|+|||+|...+..
T Consensus         5 iv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            56899999999999998755

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.0072  Score=43.06  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +..|+|.+|+|||||+..++-.+
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            56689999999999998877654

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=94.94  E-value=0.017  Score=39.16  Aligned_cols=27  Identities=19%  Similarity=0.159  Sum_probs=22.2

Q ss_pred             EEEEEEccC-CCchHHHHHHHHHHhhcc
Q 032234           70 YILGIWGIG-GIGKTTIADAVFNKISEH   96 (144)
Q Consensus        70 ~~i~I~G~g-GiGKTtLa~~v~~~~~~~   96 (144)
                      +.+-|.|-| |+||||++-.++..+...
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            346688997 999999999999977655

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.92  E-value=0.021  Score=41.65  Aligned_cols=37  Identities=22%  Similarity=0.181  Sum_probs=27.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      .-++.-++|++|+||||||-.++...+..-...+|+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID   95 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE
Confidence            3468889999999999999877765444434567775

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.92  E-value=0.0081  Score=40.01  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=18.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            356789999999999998876

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.87  E-value=0.0055  Score=40.87  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=19.9

Q ss_pred             CCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           66 SAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        66 ~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...++ |.++|.+|+|||||...+.+
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhc
Confidence            33456 55899999999999998864

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.85  E-value=0.0085  Score=40.68  Aligned_cols=20  Identities=25%  Similarity=0.278  Sum_probs=17.3

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |.++|.+|+|||+|...+.+
T Consensus         6 vvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56889999999999987765

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.78  E-value=0.0038  Score=41.75  Aligned_cols=21  Identities=38%  Similarity=0.485  Sum_probs=17.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367889999999999987654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.0096  Score=40.15  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+.+
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~   27 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLT   27 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            467899999999999998766

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=94.64  E-value=0.026  Score=41.01  Aligned_cols=36  Identities=28%  Similarity=0.224  Sum_probs=26.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      -++.-|+|++|+||||||..++-..+..=-.++|+.
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD   92 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID   92 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE
Confidence            358889999999999999887765433223456664

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.43  E-value=0.016  Score=39.09  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      --+|.+.|.=|+||||+++.+...+
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            4588999999999999999999854

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.38  E-value=0.012  Score=41.20  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=18.3

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-|.+.|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3467899999999999988753

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.35  E-value=0.013  Score=42.84  Aligned_cols=24  Identities=25%  Similarity=0.275  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++|-|+|+|-+|.|||||+.++..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            578899999999999999998865

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.29  E-value=0.0067  Score=40.51  Aligned_cols=21  Identities=29%  Similarity=0.290  Sum_probs=8.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|.++|.+|+|||||...+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467899999999999976554

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.99  E-value=0.07  Score=38.89  Aligned_cols=51  Identities=29%  Similarity=0.440  Sum_probs=35.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh-hccCCcEEEEcccccccc-hhhHHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI-SEHFEGSYFAHNVRDAEE-TDRIKDLQKQLLYE  125 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~-~~~f~~~~~v~~~~~~s~-~~~~~~l~~~ll~~  125 (144)
                      -++|.|..|+|||+|+..+.+.. +.+=+.++++.    +.+ ...+.++.+++.+.
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~----iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAG----VGERTREGNDLYHEMIES  122 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEE----ESCCHHHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEE----eccChHHHHHHHHHHHhc
Confidence            48999999999999999888764 34444556664    433 34566666666653

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.89  E-value=0.028  Score=42.14  Aligned_cols=29  Identities=24%  Similarity=0.255  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHhhccC
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKISEHF   97 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~~~~f   97 (144)
                      +-.|.|=|+=|+||||+++.+.+......
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            34567779999999999999999776544

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.83  E-value=0.09  Score=37.77  Aligned_cols=17  Identities=35%  Similarity=0.337  Sum_probs=13.5

Q ss_pred             EEEEccCCCchHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADA   88 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~   88 (144)
                      +-|.|.+|+||||.+..
T Consensus        27 ~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             EEEEECTTSCHHHHHHH
T ss_pred             EEEEecCCccHHHHHHH
Confidence            55789999999976643

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.82  E-value=0.027  Score=40.03  Aligned_cols=32  Identities=25%  Similarity=0.434  Sum_probs=23.8

Q ss_pred             HHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           55 IKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        55 ~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++.|..+|..     +...+.|.+|+|||||..++..
T Consensus        86 ~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcc
Confidence            4556666631     3557889999999999998864

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=93.81  E-value=0.025  Score=41.10  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +|-|+|.|-.|.|||||+..+..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            47889999999999999998743

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.76  E-value=0.019  Score=39.32  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-+.|.|.+|+||||+|-.+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34568899999999999887764

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=93.74  E-value=0.013  Score=43.80  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      .|.|.|..|+||||+..++...+
T Consensus       168 nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEeeccccchHHHHHHhhhc
Confidence            47889999999999999998754

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.68  E-value=0.031  Score=40.76  Aligned_cols=32  Identities=19%  Similarity=0.316  Sum_probs=25.8

Q ss_pred             HhhcCCCCeEEEEEEccCCCchHHHHHHHHHH
Q 032234           61 LLCTGSAGVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        61 ~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .|..-+..+.+|+|+|+-++|||||...++..
T Consensus        24 ~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            33333456999999999999999999998873

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.59  E-value=0.094  Score=39.88  Aligned_cols=43  Identities=21%  Similarity=0.230  Sum_probs=30.7

Q ss_pred             cchH-HHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHhh
Q 032234           49 VGVE-RHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKIS   94 (144)
Q Consensus        49 vGr~-~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~~   94 (144)
                      .|.. .+.+.+..++.   ....+|.|.|+.|.||||....+.+.+.
T Consensus       140 LG~~~~~~~~l~~l~~---~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIK---RPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             SCCCHHHHHHHHHHHT---SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcccHHHHHHHHHHHh---hhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            3433 34455555553   2357899999999999999999888653

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.44  E-value=0.019  Score=39.40  Aligned_cols=22  Identities=36%  Similarity=0.386  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -+.|.|.+|+||||+|-.+..+
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4567899999999999887663

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.42  E-value=0.007  Score=40.13  Aligned_cols=20  Identities=30%  Similarity=0.361  Sum_probs=17.2

Q ss_pred             EEEccCCCchHHHHHHHHHH
Q 032234           73 GIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        73 ~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .|+|+.|+||||+..+++--
T Consensus        28 vi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            46799999999999998753

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.35  E-value=0.024  Score=38.47  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      -+.|.|.+|+||||+|-.+..+
T Consensus        17 gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            4568899999999999887764

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.29  E-value=0.033  Score=41.72  Aligned_cols=33  Identities=24%  Similarity=0.244  Sum_probs=24.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCcEEEE
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFA  103 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v  103 (144)
                      .|.|=|.=|+||||+++.+.+....+-....++
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~   39 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLI   39 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEE
Confidence            467789999999999999998765443344433

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=93.22  E-value=0.19  Score=35.87  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .-.++|+|++.+|||||...+..
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ceEEEEEecCccchhhhhhhhhc
Confidence            45689999999999999999887

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=92.93  E-value=0.028  Score=37.65  Aligned_cols=21  Identities=38%  Similarity=0.525  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|+|.+.+|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998864

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=92.71  E-value=0.037  Score=38.65  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ++|+|.|-+..|||||..++..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            4699999999999999998765

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=92.69  E-value=0.033  Score=39.72  Aligned_cols=20  Identities=20%  Similarity=0.268  Sum_probs=14.6

Q ss_pred             EEEEccCCCchHHHH-HHHHH
Q 032234           72 LGIWGIGGIGKTTIA-DAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa-~~v~~   91 (144)
                      +.|.|.+|+||||.+ ..+..
T Consensus        17 ~lI~g~aGTGKTt~l~~rv~~   37 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKIAH   37 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHHHH
Confidence            568899999999765 34444

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=92.67  E-value=0.045  Score=40.25  Aligned_cols=35  Identities=17%  Similarity=0.026  Sum_probs=25.5

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc-cCCcEEEEc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE-HFEGSYFAH  104 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~-~f~~~~~v~  104 (144)
                      .-++|.|..|+|||+|+..+.+.... +-+.++++.
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~   79 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVL   79 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEE
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEE
Confidence            35789999999999999998886543 334444443

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.64  E-value=0.039  Score=42.11  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      .--|+|+|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45689999999999999999874

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.59  E-value=0.046  Score=41.04  Aligned_cols=35  Identities=20%  Similarity=0.266  Sum_probs=27.0

Q ss_pred             HHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           56 KQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        56 ~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      +.+.+++. ..+++|-|+|.|-.|.|||||+..+..
T Consensus         5 ~~~~~lm~-~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           5 DQMRSLMD-KVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHH-CGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHHhc-CcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            34445543 455789999999999999999998753

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=91.84  E-value=0.044  Score=39.49  Aligned_cols=21  Identities=33%  Similarity=0.556  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -+||+|+|.+|||||-.++-+
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~   24 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTK   24 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHC
Confidence            589999999999999998876

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=91.46  E-value=0.051  Score=39.51  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -+||+|.|.+|||||-.++-+
T Consensus        12 kiGivG~Pn~GKSTlfnalT~   32 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITK   32 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            489999999999999999986

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.94  E-value=0.029  Score=39.98  Aligned_cols=21  Identities=24%  Similarity=0.404  Sum_probs=17.6

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ...+.|..|+|||||..++..
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC
T ss_pred             eEEEECCCCccHHHHHHhhcc
Confidence            345889999999999998765

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=90.63  E-value=0.068  Score=39.91  Aligned_cols=25  Identities=28%  Similarity=0.231  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHHh
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      +..|.|=|.=|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            3457888999999999999987654

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.17  E-value=0.077  Score=38.62  Aligned_cols=20  Identities=30%  Similarity=0.444  Sum_probs=18.2

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |||+|.|.+|||||-.++-+
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            79999999999999998855

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.82  E-value=0.092  Score=36.12  Aligned_cols=20  Identities=35%  Similarity=0.370  Sum_probs=17.8

Q ss_pred             EEEEEccCCCchHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~   90 (144)
                      -|+|.|-.+.|||||+.++.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            37889999999999998874

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=89.73  E-value=0.11  Score=32.85  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=18.9

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      ..++..|+++.|.|||+++..++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            356777899999999998865543

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.32  E-value=0.095  Score=38.77  Aligned_cols=20  Identities=35%  Similarity=0.542  Sum_probs=17.3

Q ss_pred             EEEEEccCCCchHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~   90 (144)
                      +-.|+|+-|+|||++..+++
T Consensus        27 l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            45688999999999999874

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=88.89  E-value=0.17  Score=37.98  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=18.9

Q ss_pred             eEEEEEEccCCCchHHHHHHHHHH
Q 032234           69 VYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        69 ~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .+.+.|+|..|+|||+++..+...
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHH
Confidence            356789999999999998765543

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=88.43  E-value=1.1  Score=29.38  Aligned_cols=35  Identities=20%  Similarity=-0.081  Sum_probs=21.7

Q ss_pred             hHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHH
Q 032234           51 VERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        51 r~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      |+-+.+.+..+.. .  +  + -++++.|.|||.++..+..
T Consensus        11 r~~Q~~~~~~~~~-~--n--~-lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          11 RIYQEVIYAKCKE-T--N--C-LIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             CHHHHHHHHHGGG-S--C--E-EEECCTTSCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-C--C--e-EEEeCCCCcHHHHHHHHHH
Confidence            5555555555442 1  2  2 3678999999987665544

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=87.91  E-value=0.16  Score=36.93  Aligned_cols=34  Identities=18%  Similarity=0.025  Sum_probs=23.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCcEEEEc
Q 032234           71 ILGIWGIGGIGKTTIADAVFNKISEHFEGSYFAH  104 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~~~~~~f~~~~~v~  104 (144)
                      -++|.|..|+|||+|+..+......+-..++++.
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~  102 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQQGQNVICVYVA  102 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEE
T ss_pred             eEeeccCCCCChHHHHHHHHhhhcccCceeeeee
Confidence            3688999999999999876554444444445543

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.50  E-value=0.13  Score=36.58  Aligned_cols=20  Identities=40%  Similarity=0.606  Sum_probs=17.1

Q ss_pred             EEEEEEccCCCchHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAV   89 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v   89 (144)
                      ++-.|+|+-|+||||+..++
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            35578999999999998776

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=87.45  E-value=0.14  Score=37.91  Aligned_cols=17  Identities=35%  Similarity=0.739  Sum_probs=14.3

Q ss_pred             EEEEEccCCCchHHHHH
Q 032234           71 ILGIWGIGGIGKTTIAD   87 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~   87 (144)
                      +-.+.|+.|+|||||..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          16 VAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEEECSTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            34589999999999984

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=87.42  E-value=0.13  Score=38.17  Aligned_cols=18  Identities=33%  Similarity=0.693  Sum_probs=15.0

Q ss_pred             EEEEEccCCCchHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADA   88 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~   88 (144)
                      +-.+.|+.|+|||||.-.
T Consensus        16 valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             EEEEEECTTSCHHHHTCB
T ss_pred             EEEEEccCCCCccccccC
Confidence            456799999999999753

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=86.69  E-value=0.16  Score=37.70  Aligned_cols=17  Identities=35%  Similarity=0.732  Sum_probs=14.3

Q ss_pred             EEEEEccCCCchHHHHH
Q 032234           71 ILGIWGIGGIGKTTIAD   87 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~   87 (144)
                      +-.+.|+.|+|||||..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEEECCTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            33589999999999984

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.23  E-value=0.5  Score=31.58  Aligned_cols=32  Identities=19%  Similarity=0.096  Sum_probs=19.9

Q ss_pred             EEEEccCCCchHHHHHH-HHHHhhccCCcEEEEc
Q 032234           72 LGIWGIGGIGKTTIADA-VFNKISEHFEGSYFAH  104 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~-v~~~~~~~f~~~~~v~  104 (144)
                      +.+.++.|+|||+.|.. +..... .....+++.
T Consensus        43 ~il~apTGsGKT~~a~l~i~~~~~-~~~~vl~l~   75 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEMAMVREAI-KGGKSLYVV   75 (202)
T ss_dssp             EEEECSSHHHHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             EEEEcCCCCchhHHHHHHHHHHhh-ccCcceeec
Confidence            45889999999998753 333332 223455554

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=83.77  E-value=0.56  Score=28.23  Aligned_cols=25  Identities=36%  Similarity=0.602  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCchHHHHHHHHHH
Q 032234           68 GVYILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        68 ~~~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      ..+-|=+.|.||+|-+.||+.+.++
T Consensus         7 ~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           7 RVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hCCEEEEEEECHHHHHHHHHHHHhC
Confidence            3456778899999999999998874

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=82.56  E-value=1.3  Score=29.68  Aligned_cols=43  Identities=26%  Similarity=0.152  Sum_probs=28.8

Q ss_pred             CCccchHHHHHHHHHHhhcCCCCeEEEEEEccCCCchHHHHHHHHHHh
Q 032234           46 KDLVGVERHIKQTEPLLCTGSAGVYILGIWGIGGIGKTTIADAVFNKI   93 (144)
Q Consensus        46 ~~~vGr~~~~~~l~~~l~~~~~~~~~i~I~G~gGiGKTtLa~~v~~~~   93 (144)
                      ..+--|+.+.+.+..++..   + +. .++.+.|.|||.+|..+..+.
T Consensus        67 ~~~~Lr~yQ~eav~~~~~~---~-~~-ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          67 AEISLRDYQEKALERWLVD---K-RG-CIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCCCCHHHHHHHHHHTTT---S-EE-EEEESSSTTHHHHHHHHHHHS
T ss_pred             CCCCcCHHHHHHHHHHHhC---C-Cc-EEEeCCCCCceehHHhHHHHh
Confidence            3455677777777766632   2 22 366789999999888776654

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=82.44  E-value=0.39  Score=32.65  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|.|=...|||||+.++..
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            378999999999999998754

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.42  E-value=0.57  Score=29.77  Aligned_cols=26  Identities=4%  Similarity=0.114  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchHHHHHHHHHHhhc
Q 032234           70 YILGIWGIGGIGKTTIADAVFNKISE   95 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~~~~   95 (144)
                      ..|-+.|..|.||+|||.++...+.+
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            35667899999999999999887633

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=81.95  E-value=0.55  Score=28.66  Aligned_cols=17  Identities=24%  Similarity=-0.142  Sum_probs=13.3

Q ss_pred             EEEEEccCCCchHHHHH
Q 032234           71 ILGIWGIGGIGKTTIAD   87 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~   87 (144)
                      ...|.++.|.|||..+.
T Consensus         9 ~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           9 TTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             EEEECCCTTSSTTTTHH
T ss_pred             cEEEEcCCCCChhHHHH
Confidence            44677889999997764

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=81.40  E-value=0.45  Score=31.75  Aligned_cols=21  Identities=33%  Similarity=0.423  Sum_probs=18.0

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 032234           71 ILGIWGIGGIGKTTIADAVFN   91 (144)
Q Consensus        71 ~i~I~G~gGiGKTtLa~~v~~   91 (144)
                      -|+|.|=...|||||..++-.
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            478899889999999999853

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.01  E-value=0.44  Score=34.55  Aligned_cols=23  Identities=30%  Similarity=0.092  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCchHHHHHHHHHH
Q 032234           70 YILGIWGIGGIGKTTIADAVFNK   92 (144)
Q Consensus        70 ~~i~I~G~gGiGKTtLa~~v~~~   92 (144)
                      .-++|.|.+|+|||+|+..+...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHh
Confidence            35688999999999998766654

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.69  E-value=1  Score=30.68  Aligned_cols=19  Identities=26%  Similarity=0.303  Sum_probs=14.4

Q ss_pred             EEEEccCCCchHHHHHHHH
Q 032234           72 LGIWGIGGIGKTTIADAVF   90 (144)
Q Consensus        72 i~I~G~gGiGKTtLa~~v~   90 (144)
                      +.++++.|.|||+.+....
T Consensus        61 ~~i~apTGsGKT~~~~~~~   79 (237)
T d1gkub1          61 FAATAPTGVGKTSFGLAMS   79 (237)
T ss_dssp             EECCCCBTSCSHHHHHHHH
T ss_pred             EEEEecCCChHHHHHHHHH
Confidence            4577899999998765443